=============================================================================== 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/rebuilderdHSU2j6/inputs/rdkit_202603.2-1_all.buildinfo Source: rdkit Version: 202603.2-1 rebuilderd-worker node: ionos21-amd64 +------------------------------------------------------------------------------+ | Downloading sources Thu, 14 May 2026 08:57:52 +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 [60.6 kB] Get:5 https://deb.debian.org/debian trixie-backports InRelease [54.0 kB] Get:6 https://deb.debian.org/debian forky InRelease [151 kB] Get:7 https://deb.debian.org/debian sid InRelease [189 kB] Get:8 https://deb.debian.org/debian experimental InRelease [91.7 kB] Get:9 https://deb.debian.org/debian trixie/non-free-firmware Sources [6552 B] Get:10 https://deb.debian.org/debian trixie/main Sources [10.5 MB] Get:11 https://deb.debian.org/debian-security trixie-security/non-free-firmware Sources [696 B] Get:12 https://deb.debian.org/debian-security trixie-security/main Sources [150 kB] Get:13 https://deb.debian.org/debian trixie-updates/main Sources [2788 B] Get:14 https://deb.debian.org/debian trixie-proposed-updates/main Sources [214 kB] Get:15 https://deb.debian.org/debian trixie-backports/non-free-firmware Sources [3172 B] Get:16 https://deb.debian.org/debian trixie-backports/main Sources [214 kB] Get:17 https://deb.debian.org/debian forky/non-free-firmware Sources [8488 B] Get:18 https://deb.debian.org/debian forky/main Sources [10.7 MB] Get:19 https://deb.debian.org/debian sid/non-free-firmware Sources [10.5 kB] Get:20 https://deb.debian.org/debian sid/main Sources [11.5 MB] Get:21 https://deb.debian.org/debian experimental/non-free-firmware Sources [2568 B] Get:22 https://deb.debian.org/debian experimental/main Sources [431 kB] Fetched 34.5 MB in 3s (13.7 MB/s) Reading package lists... 'https://deb.debian.org/debian/pool/main/r/rdkit/rdkit_202603.2-1.dsc' rdkit_202603.2-1.dsc 3102 SHA256:dcf6edd605b23cb04646bea9b1bc9e1ab0c739e8640857c67e25491d30094f24 'https://deb.debian.org/debian/pool/main/r/rdkit/rdkit_202603.2.orig.tar.xz' rdkit_202603.2.orig.tar.xz 64100300 SHA256:7972fdd15e0308bca40ff9b3da51d5b6ecbb291d34104dbddc9ed5cc2ea92ee2 'https://deb.debian.org/debian/pool/main/r/rdkit/rdkit_202603.2-1.debian.tar.xz' rdkit_202603.2-1.debian.tar.xz 49232 SHA256:6f3398d2f48d09d04179c30fc62a9b2bf2767ff17f50aa7e295623043efc598a 7972fdd15e0308bca40ff9b3da51d5b6ecbb291d34104dbddc9ed5cc2ea92ee2 rdkit_202603.2.orig.tar.xz 6f3398d2f48d09d04179c30fc62a9b2bf2767ff17f50aa7e295623043efc598a rdkit_202603.2-1.debian.tar.xz dcf6edd605b23cb04646bea9b1bc9e1ab0c739e8640857c67e25491d30094f24 rdkit_202603.2-1.dsc +------------------------------------------------------------------------------+ | Calling debrebuild Thu, 14 May 2026 08:57:56 +0000 | +------------------------------------------------------------------------------+ Rebuilding rdkit=202603.2-1 in /srv/rebuilderd/tmp/rebuilderdHSU2j6/inputs now. + nice /usr/bin/debrebuild --buildresult=/srv/rebuilderd/tmp/rebuilderdHSU2j6/out --builder=sbuild+unshare --cache=/srv/rebuilderd/cache -- /srv/rebuilderd/tmp/rebuilderdHSU2j6/inputs/rdkit_202603.2-1_all.buildinfo /srv/rebuilderd/tmp/rebuilderdHSU2j6/inputs/rdkit_202603.2-1_all.buildinfo contains a GPG signature which has NOT been validated Using defined Build-Path: /build/reproducible-path/rdkit-202603.2 I: verifying dsc... successful! Get:1 http://deb.debian.org/debian unstable InRelease [189 kB] Get:2 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable InRelease [189 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 Packages [10.4 MB] Get:4 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 Packages [10.4 MB] Fetched 21.2 MB in 2s (12.9 MB/s) Reading package lists... W: http://snapshot.debian.org/archive/debian/20260506T205057Z/dists/unstable/InRelease: Loading /etc/apt/trusted.gpg from deprecated option Dir::Etc::Trusted Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libexpat1 amd64 2.8.0-1 [116 kB] Fetched 116 kB in 0s (11.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy_bgqk47/libexpat1_2.8.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-greenlet amd64 3.3.2-2 [192 kB] Fetched 192 kB in 0s (18.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppmz2jf8r/python3-greenlet_3.3.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libblkid-dev amd64 2.42-6 [211 kB] Fetched 211 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_jexowku/libblkid-dev_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 binutils-x86-64-linux-gnu amd64 2.46-3 [1058 kB] Fetched 1058 kB in 0s (64.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp80revf2j/binutils-x86-64-linux-gnu_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 hicolor-icon-theme all 0.18-2 [11.8 kB] Fetched 11.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt40zxqev/hicolor-icon-theme_0.18-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfontenc1 amd64 1:1.1.8-1+b3 [23.4 kB] Fetched 23.4 kB in 0s (0 B/s) dpkg-name: info: moved 'libfontenc1_1%3a1.1.8-1+b3_amd64.deb' to '/srv/rebuilderd/tmp/tmpw3l6a30w/libfontenc1_1.1.8-1+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxrender-dev amd64 1:0.9.12-1+b2 [38.8 kB] Fetched 38.8 kB in 0s (0 B/s) dpkg-name: info: moved 'libxrender-dev_1%3a0.9.12-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpxc6bo_j9/libxrender-dev_0.9.12-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 g++-x86-64-linux-gnu amd64 4:15.2.0-5+b1 [1204 B] Fetched 1204 B in 0s (0 B/s) dpkg-name: info: moved 'g++-x86-64-linux-gnu_4%3a15.2.0-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp4du_gx5z/g++-x86-64-linux-gnu_15.2.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpixman-1-0 amd64 0.46.4-1+b2 [259 kB] Fetched 259 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc9x9dz2y/libpixman-1-0_0.46.4-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjson-perl all 4.10000-1 [87.5 kB] Fetched 87.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp86q16paw/libjson-perl_4.10000-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsysprof-capture-4-dev amd64 50.0-3 [47.8 kB] Fetched 47.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4mlbdk9_/libsysprof-capture-4-dev_50.0-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-imagesize all 2.0.0-1 [10.1 kB] Fetched 10.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpil30ngwu/python3-imagesize_2.0.0-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libgomp1 amd64 16-20260425-1 [151 kB] Fetched 151 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmdk7pyes/libgomp1_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxdmcp-dev amd64 1:1.1.5-2+b1 [44.0 kB] Fetched 44.0 kB in 0s (4194 kB/s) dpkg-name: info: moved 'libxdmcp-dev_1%3a1.1.5-2+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpcrneaeuk/libxdmcp-dev_1.1.5-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 login.defs all 1:4.19.3-2 [208 kB] Fetched 208 kB in 0s (0 B/s) dpkg-name: info: moved 'login.defs_1%3a4.19.3-2_all.deb' to '/srv/rebuilderd/tmp/tmprx_lwuko/login.defs_4.19.3-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 llvm-21-dev amd64 1:21.1.8-7+b1 [47.4 MB] Fetched 47.4 MB in 1s (38.0 MB/s) dpkg-name: info: moved 'llvm-21-dev_1%3a21.1.8-7+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpye54hu1h/llvm-21-dev_21.1.8-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:3.1.3-4 [213 kB] Fetched 213 kB in 0s (0 B/s) dpkg-name: info: moved 'libjpeg62-turbo_1%3a3.1.3-4_amd64.deb' to '/srv/rebuilderd/tmp/tmprfk2p992/libjpeg62-turbo_3.1.3-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libinchi-dev amd64 1.07.3+dfsg-2 [19.6 kB] Fetched 19.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeqzuqpa5/libinchi-dev_1.07.3+dfsg-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtext-charwidth-perl amd64 0.04-12 [8996 B] Fetched 8996 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxj7gpvct/libtext-charwidth-perl_0.04-12_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 python3-myst-parser all 4.0.1-1 [78.8 kB] Fetched 78.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzygrcm3d/python3-myst-parser_4.0.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.58-1 [289 kB] Fetched 289 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg4ra4dgy/libpng16-16t64_1.6.58-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-container1.90-dev amd64 1.90.0-6 [257 kB] Fetched 257 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt__urzls/libboost-container1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-numpy-dev amd64 1:2.4.4+ds-2 [136 kB] Fetched 136 kB in 0s (0 B/s) dpkg-name: info: moved 'python3-numpy-dev_1%3a2.4.4+ds-2_amd64.deb' to '/srv/rebuilderd/tmp/tmpay1pn05q/python3-numpy-dev_2.4.4+ds-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpfm4 amd64 4.13.0+git106-g3e4031b-1+b2 [371 kB] Fetched 371 kB in 0s (36.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsqk0j4aa/libpfm4_4.13.0+git106-g3e4031b-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libstdc++-15-dev amd64 15.2.0-17 [2780 kB] Fetched 2780 kB in 0s (137 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbge9at45/libstdc++-15-dev_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpkgconf7 amd64 2.5.1-4 [47.8 kB] Fetched 47.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe16f033_/libpkgconf7_2.5.1-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-9+b2 [880 kB] Fetched 880 kB in 0s (73.8 MB/s) dpkg-name: info: moved 'procps_2%3a4.0.4-9+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp7qhfdzrk/procps_4.0.4-9+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libattr1 amd64 1:2.5.2-4 [23.0 kB] Fetched 23.0 kB in 0s (0 B/s) dpkg-name: info: moved 'libattr1_1%3a2.5.2-4_amd64.deb' to '/srv/rebuilderd/tmp/tmph2wfp0vi/libattr1_2.5.2-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libmd0 amd64 1.1.0-2+b2 [36.2 kB] Fetched 36.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp55yctifr/libmd0_1.1.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-date-time1.90.0 amd64 1.90.0-6 [222 kB] Fetched 222 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzqaaa1_g/libboost-date-time1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-serialization1.90.0 amd64 1.90.0-6 [326 kB] Fetched 326 kB in 0s (23.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgvcn_2uo/libboost-serialization1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxmu6 amd64 2:1.1.3-4+b1 [59.6 kB] Fetched 59.6 kB in 0s (0 B/s) dpkg-name: info: moved 'libxmu6_2%3a1.1.3-4+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpg_gcw1y6/libxmu6_1.1.3-4+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Fetched 104 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoi2xqrcf/libarchive-zip-perl_1.68-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 pandoc-data all 3.9.0.2-1 [526 kB] Fetched 526 kB in 0s (50.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdcv5mnn6/pandoc-data_3.9.0.2-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libstdc++6 amd64 16-20260425-1 [824 kB] Fetched 824 kB in 0s (69.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9007vylc/libstdc++6_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-numpy1.90.0 amd64 1.90.0-6 [238 kB] Fetched 238 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp253tp_5o/libboost-numpy1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libopenjp2-7 amd64 2.5.4-1.1 [205 kB] Fetched 205 kB in 0s (19.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxeee1091/libopenjp2-7_2.5.4-1.1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-core all 2.37-9 [840 kB] Fetched 840 kB in 0s (68.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnrh5gkmc/fonts-dejavu-core_2.37-9_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-dev amd64 1.90.0.2 [3064 B] Fetched 3064 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi2_u318s/libboost-dev_1.90.0.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pytz all 2025.2-6 [31.2 kB] Fetched 31.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpayod8tzb/python3-pytz_2025.2-6_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libquadmath0 amd64 16-20260425-1 [147 kB] Fetched 147 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb4znoxly/libquadmath0_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-packaging all 26.0-1 [64.3 kB] Fetched 64.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvn2gpntx/python3-packaging_26.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xorg-sgml-doctools all 1:1.12.1-1 [23.9 kB] Fetched 23.9 kB in 0s (0 B/s) dpkg-name: info: moved 'xorg-sgml-doctools_1%3a1.12.1-1_all.deb' to '/srv/rebuilderd/tmp/tmp9d_o5j2h/xorg-sgml-doctools_1.12.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdpkg-perl all 1.23.7 [669 kB] Fetched 669 kB in 0s (62.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4un35r6w/libdpkg-perl_1.23.7_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwebpmux3 amd64 1.5.0-0.1+b2 [126 kB] Fetched 126 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjhr402lo/libwebpmux3_1.5.0-0.1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xfonts-utils amd64 1:7.7+7 [93.3 kB] Fetched 93.3 kB in 0s (0 B/s) dpkg-name: info: moved 'xfonts-utils_1%3a7.7+7_amd64.deb' to '/srv/rebuilderd/tmp/tmpj9mnwm3s/xfonts-utils_7.7+7_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 tar amd64 1.35+dfsg-4 [817 kB] Fetched 817 kB in 0s (65.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeh167eza/tar_1.35+dfsg-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cpp-15-x86-64-linux-gnu amd64 15.2.0-17 [12.1 MB] Fetched 12.1 MB in 0s (28.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu42n0kgp/cpp-15-x86-64-linux-gnu_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libharfbuzz-subset0 amd64 12.3.2-2+b2 [574 kB] Fetched 574 kB in 0s (2946 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy2pijonn/libharfbuzz-subset0_12.3.2-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmpfi0 amd64 1.5.4+ds-5 [36.0 kB] Fetched 36.0 kB in 0s (149 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdy32t4ev/libmpfi0_1.5.4+ds-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libobjc-15-dev amd64 15.2.0-17 [173 kB] Fetched 173 kB in 0s (870 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppz8w0jr6/libobjc-15-dev_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-random1.90-dev amd64 1.90.0-6 [232 kB] Fetched 232 kB in 0s (859 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpitczpahm/libboost-random1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfreetype6 amd64 2.14.3+dfsg-1 [493 kB] Fetched 493 kB in 0s (2101 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppbpaklcl/libfreetype6_2.14.3+dfsg-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 debianutils amd64 5.23.2 [92.4 kB] Fetched 92.4 kB in 0s (3138 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe26hpbao/debianutils_5.23.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-render0 amd64 1.17.0-2+b2 [115 kB] Fetched 115 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuioht5mj/libxcb-render0_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 netbase all 6.5 [12.4 kB] Fetched 12.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprfk8m5w6/netbase_6.5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 postgresql-client-common all 290 [40.5 kB] Fetched 40.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm5gzegpb/postgresql-client-common_290_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 bubblewrap amd64 0.11.2-1 [52.2 kB] Fetched 52.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp09o1zhj7/bubblewrap_0.11.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsystemd0 amd64 260.1-1 [446 kB] Fetched 446 kB in 0s (44.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt7jd78rg/libsystemd0_260.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcap-ng0 amd64 0.9.3-1 [17.9 kB] Fetched 17.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4ja5opui/libcap-ng0_0.9.3-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libgfortran5 amd64 16-20260425-1 [884 kB] Fetched 884 kB in 0s (73.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp72dssvhd/libgfortran5_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcrypt1 amd64 1:4.5.1-1+b1 [96.4 kB] Fetched 96.4 kB in 0s (0 B/s) dpkg-name: info: moved 'libcrypt1_1%3a4.5.1-1+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp816hgfst/libcrypt1_4.5.1-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libraw23t64 amd64 0.21.5b-1+b1 [392 kB] Fetched 392 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzns0a_hs/libraw23t64_0.21.5b-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 doxygen amd64 1.15.0+ds1-1.1 [5544 kB] Fetched 5544 kB in 0s (175 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpovt8he8r/doxygen_1.15.0+ds1-1.1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc amd64 4:15.2.0-5+b1 [5160 B] Fetched 5160 B in 0s (0 B/s) dpkg-name: info: moved 'gcc_4%3a15.2.0-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp50j6_b3l/gcc_15.2.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ncurses-base all 6.6+20251231-1 [277 kB] Fetched 277 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpq4e4lunb/ncurses-base_6.6+20251231-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-commonmark all 0.9.1-8 [45.5 kB] Fetched 45.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkr0y9p80/python3-commonmark_0.9.1-8_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 binutils-common amd64 2.46-3 [2632 kB] Fetched 2632 kB in 0s (136 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx3jcl5kn/binutils-common_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblz4-1 amd64 1.10.0-10 [70.3 kB] Fetched 70.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp236b1kg6/liblz4-1_1.10.0-10_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1+nmu1 [60.0 kB] Fetched 60.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpck1mqrws/autotools-dev_20240727.1+nmu1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 openssl-provider-legacy amd64 3.6.2-1 [316 kB] Fetched 316 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl_5t869k/openssl-provider-legacy_3.6.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 texlive-binaries amd64 2026.20260303.78225+ds-3 [9243 kB] Fetched 9243 kB in 0s (167 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcf1editg/texlive-binaries_2026.20260303.78225+ds-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-6 [494 kB] Fetched 494 kB in 0s (48.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdbwfqr14/autoconf_2.72-6_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libffi-dev amd64 3.5.2-4 [64.6 kB] Fetched 64.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp810yzwj6/libffi-dev_3.5.2-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libhwasan0 amd64 16-20260425-1 [1580 kB] Fetched 1580 kB in 0s (100 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbgokqkzr/libhwasan0_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmount-dev amd64 2.42-6 [26.2 kB] Fetched 26.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxb9ec4wc/libmount-dev_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwebp7 amd64 1.5.0-0.1+b2 [335 kB] Fetched 335 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpma16zuq2/libwebp7_1.5.0-0.1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-docutils all 0.22.4+dfsg-1 [433 kB] Fetched 433 kB in 0s (42.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsi_q4yg1/python3-docutils_0.22.4+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cpp-15 amd64 15.2.0-17 [1276 B] Fetched 1276 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_vanam02/cpp-15_15.2.0-17_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libmagickcore-7.q16-10 amd64 8:7.1.2.21+dfsg1-1 [1866 kB] Fetched 1866 kB in 0s (113 MB/s) dpkg-name: info: moved 'libmagickcore-7.q16-10_8%3a7.1.2.21+dfsg1-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpre_tr0ek/libmagickcore-7.q16-10_7.1.2.21+dfsg1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libctf0 amd64 2.46-3 [92.2 kB] Fetched 92.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyfvx9kww/libctf0_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-charset-normalizer amd64 3.4.7-1 [245 kB] Fetched 245 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp66w55eg6/python3-charset-normalizer_3.4.7-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libseccomp2 amd64 2.6.0-2+b1 [52.2 kB] Fetched 52.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp01xe1gsw/libseccomp2_2.6.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libteckit0 amd64 2.5.13+ds-1+b1 [369 kB] Fetched 369 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpft9zx5vu/libteckit0_2.5.13+ds-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxxhash0 amd64 0.8.3-2+b2 [27.1 kB] Fetched 27.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuoewvl4f/libxxhash0_0.8.3-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-numpy amd64 1:2.4.4+ds-2 [7331 kB] Fetched 7331 kB in 0s (181 MB/s) dpkg-name: info: moved 'python3-numpy_1%3a2.4.4+ds-2_amd64.deb' to '/srv/rebuilderd/tmp/tmpkbm43o6z/python3-numpy_2.4.4+ds-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-15-x86-64-linux-gnu amd64 15.2.0-17 [23.4 MB] Fetched 23.4 MB in 0s (83.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6g8j8ovo/gcc-15-x86-64-linux-gnu_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdebconfclient0 amd64 0.282+b3 [7720 B] Fetched 7720 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpstripbnr/libdebconfclient0_0.282+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xdg-utils all 1.2.1-2 [75.8 kB] Fetched 75.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4b5vlfbi/xdg-utils_1.2.1-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-python1.90.0 amd64 1.90.0-6 [345 kB] Fetched 345 kB in 1s (603 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplkp4gv09/libboost-python1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 llvm-21 amd64 1:21.1.8-7+b1 [18.6 MB] Fetched 18.6 MB in 1s (26.1 MB/s) dpkg-name: info: moved 'llvm-21_1%3a21.1.8-7+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp75bydljo/llvm-21_21.1.8-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 postgresql-server-dev-all all 290 [7556 B] Fetched 7556 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_lq3sgj5/postgresql-server-dev-all_290_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcatch2-dev amd64 3.7.1-0.6+b1 [610 kB] Fetched 610 kB in 0s (57.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7zhwsrxb/libcatch2-dev_3.7.1-0.6+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 llvm-21-tools amd64 1:21.1.8-7+b1 [462 kB] Fetched 462 kB in 0s (44.9 MB/s) dpkg-name: info: moved 'llvm-21-tools_1%3a21.1.8-7+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmps8dahqhk/llvm-21-tools_21.1.8-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpq-dev amd64 18.3-1+b1 [167 kB] Fetched 167 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzvpvzhqp/libpq-dev_18.3-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdav1d7 amd64 1.5.3-1+b2 [563 kB] Fetched 563 kB in 0s (53.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp75cl4ua5/libdav1d7_1.5.3-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 mawk amd64 1.3.4.20260302-1 [142 kB] Fetched 142 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9tm26c82/mawk_1.3.4.20260302-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libinchi1.07 amd64 1.07.3+dfsg-2 [556 kB] Fetched 556 kB in 0s (51.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgbeungnq/libinchi1.07_1.07.3+dfsg-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.2.0-3 [320 kB] Fetched 320 kB in 0s (30.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5ot4zkav/libbrotli1_1.2.0-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.23-2+b2 [48.3 kB] Fetched 48.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyo39i2pk/libdeflate0_1.23-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libheif-plugin-libde265 amd64 1.21.2-4 [16.9 kB] Fetched 16.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6y1zvsf6/libheif-plugin-libde265_1.21.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libio-pty-perl amd64 1:1.28-1 [36.1 kB] Fetched 36.1 kB in 0s (0 B/s) dpkg-name: info: moved 'libio-pty-perl_1%3a1.28-1_amd64.deb' to '/srv/rebuilderd/tmp/tmp5vt6hmtt/libio-pty-perl_1.28-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libtsan2 amd64 16-20260425-1 [2572 kB] Fetched 2572 kB in 0s (132 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy3fw88gd/libtsan2_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pluggy all 1.6.0-2 [27.2 kB] Fetched 27.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp05s9osj7/python3-pluggy_1.6.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-numpy-dev amd64 1.90.0.2 [2900 B] Fetched 2900 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpff37cxpf/libboost-numpy-dev_1.90.0.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 perl-base amd64 5.40.1-7+b1 [1676 kB] Fetched 1676 kB in 0s (105 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphmz5xm9v/perl-base_5.40.1-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-urllib3 all 2.6.3-2 [118 kB] Fetched 118 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoo8v1ztp/python3-urllib3_2.6.3-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgdbm-compat4t64 amd64 1.26-1+b2 [52.0 kB] Fetched 52.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpks9ydia5/libgdbm-compat4t64_1.26-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libncurses6 amd64 6.6+20251231-1+b1 [107 kB] Fetched 107 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp__aq_2cu/libncurses6_6.6+20251231-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libudev1 amd64 260.1-1 [133 kB] Fetched 133 kB in 0s (333 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc4ax7tdf/libudev1_260.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 texlive-base all 2026.20260328-4 [23.9 MB] Fetched 23.9 MB in 1s (45.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc448r_e5/texlive-base_2026.20260328-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 llvm-21-runtime amd64 1:21.1.8-7+b1 [539 kB] Fetched 539 kB in 0s (52.1 MB/s) dpkg-name: info: moved 'llvm-21-runtime_1%3a21.1.8-7+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpb814dl16/llvm-21-runtime_21.1.8-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.42-6 [99.5 kB] Fetched 99.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp47ucoi1b/bsdextrautils_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtiff6 amd64 4.7.1-2 [357 kB] Fetched 357 kB in 0s (35.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_snka_5x/libtiff6_4.7.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.4-1 [19.2 kB] Fetched 19.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp54yaoqfl/libcom-err2_1.47.4-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-test1.90.0 amd64 1.90.0-6 [465 kB] Fetched 465 kB in 0s (45.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkegd3rcf/libboost-test1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-2+b1 [28.2 kB] Fetched 28.2 kB in 0s (0 B/s) dpkg-name: info: moved 'libxdmcp6_1%3a1.1.5-2+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmps8mes6qn/libxdmcp6_1.1.5-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglib2.0-data all 2.88.1-2 [1278 kB] Fetched 1278 kB in 0s (93.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnpz2gsvp/libglib2.0-data_2.88.1-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-certifi all 2026.4.22+ds-1 [9684 B] Fetched 9684 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5lvemx0e/python3-certifi_2026.4.22+ds-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmpc3 amd64 1.3.1-3 [52.2 kB] Fetched 52.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc15g8qo3/libmpc3_1.3.1-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-iostreams1.90-dev amd64 1.90.0-6 [253 kB] Fetched 253 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_6yerj52/libboost-iostreams1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-graph1.90.0 amd64 1.90.0-6 [355 kB] Fetched 355 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7jphsloc/libboost-graph1.90.0_1.90.0-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libc-gconv-modules-extra amd64 2.42-15 [1102 kB] Fetched 1102 kB in 0s (84.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4uh1992s/libc-gconv-modules-extra_2.42-15_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 librsvg2-2 amd64 2.62.1+dfsg-1 [1828 kB] Fetched 1828 kB in 0s (112 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptng1pvut/librsvg2-2_2.62.1+dfsg-1_amd64.deb' Downloading dependency 1 of 510: libexpat1:amd64=2.8.0-1 Downloading dependency 2 of 510: python3-greenlet:amd64=3.3.2-2 Downloading dependency 3 of 510: libblkid-dev:amd64=2.42-6 Downloading dependency 4 of 510: binutils-x86-64-linux-gnu:amd64=2.46-3 Downloading dependency 5 of 510: hicolor-icon-theme:amd64=0.18-2 Downloading dependency 6 of 510: libfontenc1:amd64=1:1.1.8-1+b3 Downloading dependency 7 of 510: libxrender-dev:amd64=1:0.9.12-1+b2 Downloading dependency 8 of 510: g++-x86-64-linux-gnu:amd64=4:15.2.0-5+b1 Downloading dependency 9 of 510: libpixman-1-0:amd64=0.46.4-1+b2 Downloading dependency 10 of 510: libjson-perl:amd64=4.10000-1 Downloading dependency 11 of 510: libsysprof-capture-4-dev:amd64=50.0-3 Downloading dependency 12 of 510: python3-imagesize:amd64=2.0.0-1 Downloading dependency 13 of 510: libgomp1:amd64=16-20260425-1 Downloading dependency 14 of 510: libxdmcp-dev:amd64=1:1.1.5-2+b1 Downloading dependency 15 of 510: login.defs:amd64=1:4.19.3-2 Downloading dependency 16 of 510: llvm-21-dev:amd64=1:21.1.8-7+b1 Downloading dependency 17 of 510: libjpeg62-turbo:amd64=1:3.1.3-4 Downloading dependency 18 of 510: libinchi-dev:amd64=1.07.3+dfsg-2 Downloading dependency 19 of 510: libtext-charwidth-perl:amd64=0.04-12 Downloading dependency 20 of 510: python3-myst-parser:amd64=4.0.1-1 Downloading dependency 21 of 510: libpng16-16t64:amd64=1.6.58-1 Downloading dependency 22 of 510: libboost-container1.90-dev:amd64=1.90.0-6 Downloading dependency 23 of 510: python3-numpy-dev:amd64=1:2.4.4+ds-2 Downloading dependency 24 of 510: libpfm4:amd64=4.13.0+git106-g3e4031b-1+b2 Downloading dependency 25 of 510: libstdc++-15-dev:amd64=15.2.0-17 Downloading dependency 26 of 510: libpkgconf7:amd64=2.5.1-4 Downloading dependency 27 of 510: procps:amd64=2:4.0.4-9+b2 Downloading dependency 28 of 510: libattr1:amd64=1:2.5.2-4 Downloading dependency 29 of 510: libmd0:amd64=1.1.0-2+b2 Downloading dependency 30 of 510: libboost-date-time1.90.0:amd64=1.90.0-6 Downloading dependency 31 of 510: libboost-serialization1.90.0:amd64=1.90.0-6 Downloading dependency 32 of 510: libxmu6:amd64=2:1.1.3-4+b1 Downloading dependency 33 of 510: libarchive-zip-perl:amd64=1.68-1 Downloading dependency 34 of 510: pandoc-data:amd64=3.9.0.2-1 Downloading dependency 35 of 510: libstdc++6:amd64=16-20260425-1 Downloading dependency 36 of 510: libboost-numpy1.90.0:amd64=1.90.0-6 Downloading dependency 37 of 510: libopenjp2-7:amd64=2.5.4-1.1 Downloading dependency 38 of 510: fonts-dejavu-core:amd64=2.37-9 Downloading dependency 39 of 510: libboost-dev:amd64=1.90.0.2 Downloading dependency 40 of 510: python3-pytz:amd64=2025.2-6 Downloading dependency 41 of 510: libquadmath0:amd64=16-20260425-1 Downloading dependency 42 of 510: python3-packaging:amd64=26.0-1 Downloading dependency 43 of 510: xorg-sgml-doctools:amd64=1:1.12.1-1 Downloading dependency 44 of 510: libdpkg-perl:amd64=1.23.7 Downloading dependency 45 of 510: libwebpmux3:amd64=1.5.0-0.1+b2 Downloading dependency 46 of 510: xfonts-utils:amd64=1:7.7+7 Downloading dependency 47 of 510: tar:amd64=1.35+dfsg-4 Downloading dependency 48 of 510: cpp-15-x86-64-linux-gnu:amd64=15.2.0-17 Downloading dependency 49 of 510: libharfbuzz-subset0:amd64=12.3.2-2+b2 Downloading dependency 50 of 510: libmpfi0:amd64=1.5.4+ds-5 Downloading dependency 51 of 510: libobjc-15-dev:amd64=15.2.0-17 Downloading dependency 52 of 510: libboost-random1.90-dev:amd64=1.90.0-6 Downloading dependency 53 of 510: libfreetype6:amd64=2.14.3+dfsg-1 Downloading dependency 54 of 510: debianutils:amd64=5.23.2 Downloading dependency 55 of 510: libxcb-render0:amd64=1.17.0-2+b2 Downloading dependency 56 of 510: netbase:amd64=6.5 Downloading dependency 57 of 510: postgresql-client-common:amd64=290 Downloading dependency 58 of 510: bubblewrap:amd64=0.11.2-1 Downloading dependency 59 of 510: libsystemd0:amd64=260.1-1 Downloading dependency 60 of 510: libcap-ng0:amd64=0.9.3-1 Downloading dependency 61 of 510: libgfortran5:amd64=16-20260425-1 Downloading dependency 62 of 510: libcrypt1:amd64=1:4.5.1-1+b1 Downloading dependency 63 of 510: libraw23t64:amd64=0.21.5b-1+b1 Downloading dependency 64 of 510: doxygen:amd64=1.15.0+ds1-1.1 Downloading dependency 65 of 510: gcc:amd64=4:15.2.0-5+b1 Downloading dependency 66 of 510: ncurses-base:amd64=6.6+20251231-1 Downloading dependency 67 of 510: python3-commonmark:amd64=0.9.1-8 Downloading dependency 68 of 510: binutils-common:amd64=2.46-3 Downloading dependency 69 of 510: liblz4-1:amd64=1.10.0-10 Downloading dependency 70 of 510: autotools-dev:amd64=20240727.1+nmu1 Downloading dependency 71 of 510: openssl-provider-legacy:amd64=3.6.2-1 Downloading dependency 72 of 510: texlive-binaries:amd64=2026.20260303.78225+ds-3 Downloading dependency 73 of 510: autoconf:amd64=2.72-6 Downloading dependency 74 of 510: libffi-dev:amd64=3.5.2-4 Downloading dependency 75 of 510: libhwasan0:amd64=16-20260425-1 Downloading dependency 76 of 510: libmount-dev:amd64=2.42-6 Downloading dependency 77 of 510: libwebp7:amd64=1.5.0-0.1+b2 Downloading dependency 78 of 510: python3-docutils:amd64=0.22.4+dfsg-1 Downloading dependency 79 of 510: cpp-15:amd64=15.2.0-17 Downloading dependency 80 of 510: libmagickcore-7.q16-10:amd64=8:7.1.2.21+dfsg1-1 Downloading dependency 81 of 510: libctf0:amd64=2.46-3 Downloading dependency 82 of 510: python3-charset-normalizer:amd64=3.4.7-1 Downloading dependency 83 of 510: libseccomp2:amd64=2.6.0-2+b1 Downloading dependency 84 of 510: libteckit0:amd64=2.5.13+ds-1+b1 Downloading dependency 85 of 510: libxxhash0:amd64=0.8.3-2+b2 Downloading dependency 86 of 510: python3-numpy:amd64=1:2.4.4+ds-2 Downloading dependency 87 of 510: gcc-15-x86-64-linux-gnu:amd64=15.2.0-17 Downloading dependency 88 of 510: libdebconfclient0:amd64=0.282+b3 Downloading dependency 89 of 510: xdg-utils:amd64=1.2.1-2 Downloading dependency 90 of 510: libboost-python1.90.0:amd64=1.90.0-6 Downloading dependency 91 of 510: llvm-21:amd64=1:21.1.8-7+b1 Downloading dependency 92 of 510: postgresql-server-dev-all:amd64=290 Downloading dependency 93 of 510: libcatch2-dev:amd64=3.7.1-0.6+b1 Downloading dependency 94 of 510: llvm-21-tools:amd64=1:21.1.8-7+b1 Downloading dependency 95 of 510: libpq-dev:amd64=18.3-1+b1 Downloading dependency 96 of 510: libdav1d7:amd64=1.5.3-1+b2 Downloading dependency 97 of 510: mawk:amd64=1.3.4.20260302-1 Downloading dependency 98 of 510: libinchi1.07:amd64=1.07.3+dfsg-2 Downloading dependency 99 of 510: libbrotli1:amd64=1.2.0-3 Downloading dependency 100 of 510: libdeflate0:amd64=1.23-2+b2 Downloading dependency 101 of 510: libheif-plugin-libde265:amd64=1.21.2-4 Downloading dependency 102 of 510: libio-pty-perl:amd64=1:1.28-1 Downloading dependency 103 of 510: libtsan2:amd64=16-20260425-1 Downloading dependency 104 of 510: python3-pluggy:amd64=1.6.0-2 Downloading dependency 105 of 510: libboost-numpy-dev:amd64=1.90.0.2 Downloading dependency 106 of 510: perl-base:amd64=5.40.1-7+b1 Downloading dependency 107 of 510: python3-urllib3:amd64=2.6.3-2 Downloading dependency 108 of 510: libgdbm-compat4t64:amd64=1.26-1+b2 Downloading dependency 109 of 510: libncurses6:amd64=6.6+20251231-1+b1 Downloading dependency 110 of 510: libudev1:amd64=260.1-1 Downloading dependency 111 of 510: texlive-base:amd64=2026.20260328-4 Downloading dependency 112 of 510: llvm-21-runtime:amd64=1:21.1.8-7+b1 Downloading dependency 113 of 510: bsdextrautils:amd64=2.42-6 Downloading dependency 114 of 510: libtiff6:amd64=4.7.1-2 Downloading dependency 115 of 510: libcom-err2:amd64=1.47.4-1 Downloading dependency 116 of 510: libboost-test1.90.0:amd64=1.90.0-6 Downloading dependency 117 of 510: libxdmcp6:amd64=1:1.1.5-2+b1 Downloading dependency 118 of 510: libglib2.0-data:amd64=2.88.1-2 Downloading dependency 119 of 510: python3-certifi:amd64=2026.4.22+ds-1 Downloading dependency 120 of 510: libmpc3:amd64=1.3.1-3 Downloading dependency 121 of 510: libboost-iostreams1.90-dev:amd64=1.90.0-6 Downloading dependency 122 of 510: libboost-graph1.90.0:amd64=1.90.0-6 Downloading dependency 123 of 510: libc-gconv-modules-extra:amd64=2.42-15 Downloading dependency 124 of 510: librsvg2-2:amd64=2.62.1+dfsg-1 Downloading dependency 125 of 510: libpcre2-dev:amd64=10.46-1+b2Get:1 http://deb.debian.org/debian unstable/main amd64 libpcre2-dev amd64 10.46-1+b2 [846 kB] Fetched 846 kB in 0s (71.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn8vjmlko/libpcre2-dev_10.46-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libthai0 amd64 0.1.30-1+b1 [52.1 kB] Fetched 52.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5dnjiunw/libthai0_0.1.30-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblqr-1-0 amd64 0.4.2-2.2+b1 [30.0 kB] Fetched 30.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo6gv0_1b/liblqr-1-0_0.4.2-2.2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpam-modules amd64 1.7.0-5+b2 [175 kB] Fetched 175 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_spmjkw4/libpam-modules_1.7.0-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libx11-dev amd64 2:1.8.13-1 [903 kB] Fetched 903 kB in 0s (77.4 MB/s) dpkg-name: info: moved 'libx11-dev_2%3a1.8.13-1_amd64.deb' to '/srv/rebuilderd/tmp/tmp7bxcp2yc/libx11-dev_1.8.13-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsvtav1enc4 amd64 4.1.0+dfsg-1 [2414 kB] Fetched 2414 kB in 0s (130 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeqfg5mli/libsvtav1enc4_4.1.0+dfsg-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwebpdemux2 amd64 1.5.0-0.1+b2 [113 kB] Fetched 113 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps62lc9za/libwebpdemux2_1.5.0-0.1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-uc-micro all 2.0.0-1 [6028 B] Fetched 6028 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpevxa6y7a/python3-uc-micro_2.0.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5+b2 [109 kB] Fetched 109 kB in 0s (0 B/s) dpkg-name: info: moved 'libmagic1t64_1%3a5.46-5+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpmz1v560u/libmagic1t64_5.46-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fonts-lmodern all 2.005-1 [4540 kB] Fetched 4540 kB in 0s (165 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9mctl7ga/fonts-lmodern_2.005-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Fetched 22.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphvm9dzvs/intltool-debian_0.35.0+20060710.6_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b2 [144 kB] Fetched 144 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphhwtwslz/libxcb1_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-program-options1.90.0 amd64 1.90.0-6 [339 kB] Fetched 339 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5of2ftpg/libboost-program-options1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-chrono1.90-dev amd64 1.90.0-6 [237 kB] Fetched 237 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjwiqekbl/libboost-chrono1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.90.0 amd64 1.90.0-6 [327 kB] Fetched 327 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf6r8_f9a/libboost-regex1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.2.0-3 [324 kB] Fetched 324 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp38w3afic/libbrotli-dev_1.2.0-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbz2-dev amd64 1.0.8-6+b2 [33.6 kB] Fetched 33.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3rxwdw3u/libbz2-dev_1.0.8-6+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3.13-dev amd64 3.13.12-1 [5298 kB] Fetched 5298 kB in 0s (171 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpns55z1z6/libpython3.13-dev_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 init-system-helpers all 1.69 [39.3 kB] Fetched 39.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdke98_yl/init-system-helpers_1.69_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.2-3 [90.9 kB] Fetched 90.9 kB in 0s (0 B/s) dpkg-name: info: moved 'zlib1g_1%3a1.3.dfsg+really1.3.2-3_amd64.deb' to '/srv/rebuilderd/tmp/tmpmb_k_h9r/zlib1g_1.3.dfsg+really1.3.2-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcap2 amd64 1:2.78-1 [26.9 kB] Fetched 26.9 kB in 0s (0 B/s) dpkg-name: info: moved 'libcap2_1%3a2.78-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpf_t59wfy/libcap2_2.78-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 x11proto-dev all 2025.1-1 [605 kB] Fetched 605 kB in 0s (57.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpel0bu3z1/x11proto-dev_2025.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpcre2-posix3 amd64 10.46-1+b2 [63.3 kB] Fetched 63.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkpvqsabz/libpcre2-posix3_10.46-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 shared-mime-info amd64 2.4-5+b3 [758 kB] Fetched 758 kB in 0s (66.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiobcabyn/shared-mime-info_2.4-5+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libzzip-0-13t64 amd64 0.13.78+dfsg.1-0.2+b1 [58.9 kB] Fetched 58.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3ik_sc0t/libzzip-0-13t64_0.13.78+dfsg.1-0.2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcoordgen-dev amd64 3.0.2-4 [45.8 kB] Fetched 45.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqry1su6_/libcoordgen-dev_3.0.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxml2-dev amd64 2.15.2+dfsg-0.1 [745 kB] Fetched 745 kB in 0s (64.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfi180k2e/libxml2-dev_2.15.2+dfsg-0.1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cmake amd64 4.3.2-1 [16.2 MB] Fetched 16.2 MB in 0s (100 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiyjuv993/cmake_4.3.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 binutils amd64 2.46-3 [282 kB] Fetched 282 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk6ckemd1/binutils_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sed amd64 4.9-3 [331 kB] Fetched 331 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn1ebznqh/sed_4.9-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpcre2-8-0 amd64 10.46-1+b2 [297 kB] Fetched 297 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkyflcw3i/libpcre2-8-0_10.46-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 perl-modules-5.40 all 5.40.1-7 [3012 kB] Fetched 3012 kB in 0s (147 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6hbv9tw1/perl-modules-5.40_5.40.1-7_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20260223 [158 kB] Fetched 158 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkpls_o9u/ca-certificates_20260223_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-15 amd64 15.2.0-17 [542 kB] Fetched 542 kB in 0s (49.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpavdzoeuq/gcc-15_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libaom3 amd64 3.13.1-2+b1 [1904 kB] Fetched 1904 kB in 0s (114 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdn1b8kj8/libaom3_3.13.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-python-dev amd64 1.90.0.2 [3160 B] Fetched 3160 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8w1njf65/libboost-python-dev_1.90.0.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcommons-logging-java all 1.3.0-2 [68.6 kB] Fetched 68.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8a3v1u3d/libcommons-logging-java_1.3.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglib2.0-dev-bin amd64 2.88.1-2 [37.5 kB] Fetched 37.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2h6ty8i5/libglib2.0-dev-bin_2.88.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 librsvg2-bin amd64 2.62.1+dfsg-1 [1984 kB] Fetched 1984 kB in 0s (111 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9rfq6o_w/librsvg2-bin_2.62.1+dfsg-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-11 [17.2 kB] Fetched 17.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2l06tego/libsasl2-modules-db_2.1.28+dfsg1-11_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblua5.4-0 amd64 5.4.8-1+b2 [148 kB] Fetched 148 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe_utqxqb/liblua5.4-0_5.4.8-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.2+dfsg-0.1 [641 kB] Fetched 641 kB in 0s (55.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd60cf_9c/libxml2-16_2.15.2+dfsg-0.1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libgcc-s1 amd64 16-20260425-1 [74.0 kB] Fetched 74.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp44nwsa5u/libgcc-s1_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 tzdata all 2026b-1 [260 kB] Fetched 260 kB in 0s (24.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjkl98khg/tzdata_2026b-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libldap2 amd64 2.6.10+dfsg-1+b2 [188 kB] Fetched 188 kB in 0s (18.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpygj0s62h/libldap2_2.6.10+dfsg-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfontconfig-dev amd64 2.17.1-5 [155 kB] Fetched 155 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi8wc50cc/libfontconfig-dev_2.17.1-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpixman-1-dev amd64 0.46.4-1+b2 [12.0 kB] Fetched 12.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk05vkirp/libpixman-1-dev_0.46.4-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 x11-common all 1:7.7+26 [217 kB] Fetched 217 kB in 0s (21.2 MB/s) dpkg-name: info: moved 'x11-common_1%3a7.7+26_all.deb' to '/srv/rebuilderd/tmp/tmpompbovwa/x11-common_7.7+26_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libffi8 amd64 3.5.2-4 [25.2 kB] Fetched 25.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi4h2i1kl/libffi8_3.5.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-shm0 amd64 1.17.0-2+b2 [105 kB] Fetched 105 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpopwwhaci/libxcb-shm0_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libice-dev amd64 2:1.1.1-1+b2 [75.3 kB] Fetched 75.3 kB in 0s (0 B/s) dpkg-name: info: moved 'libice-dev_2%3a1.1.1-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp0nijay29/libice-dev_1.1.1-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 glycin-thumbnailers amd64 2.0.8-1 [1053 kB] Fetched 1053 kB in 0s (85.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx78l0tw9/glycin-thumbnailers_2.0.8-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-program-options1.90-dev amd64 1.90.0-6 [366 kB] Fetched 366 kB in 0s (35.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdmifa6ak/libboost-program-options1.90-dev_1.90.0-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libssh2-1t64 amd64 1.11.1-2 [244 kB] Fetched 244 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9_f_d3v1/libssh2-1t64_1.11.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-shm0-dev amd64 1.17.0-2+b2 [108 kB] Fetched 108 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnv44_v5i/libxcb-shm0-dev_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpcre2-16-0 amd64 10.46-1+b2 [280 kB] Fetched 280 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprfn65av5/libpcre2-16-0_10.46-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 make amd64 4.4.1-3 [463 kB] Fetched 463 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe5snjq9d/make_4.4.1-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjbig0 amd64 2.1-6.1+b3 [32.2 kB] Fetched 32.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_j9sjhpy/libjbig0_2.1-6.1+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfmt10 amd64 10.1.1+ds1-4+b2 [126 kB] Fetched 126 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0ci0iy4w/libfmt10_10.1.1+ds1-4+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xml-core all 0.20 [20.0 kB] Fetched 20.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpveiu8yx0/xml-core_0.20_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 texlive-latex-base all 2026.20260328-4 [1342 kB] Fetched 1342 kB in 0s (96.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2uf2lntz/texlive-latex-base_2026.20260328-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Fetched 27.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbn0q5b39/sensible-utils_0.0.26_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 t1utils amd64 1.41-4 [62.1 kB] Fetched 62.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkodzfar7/t1utils_1.41-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 bash amd64 5.3-3 [1559 kB] Fetched 1559 kB in 0s (107 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp719d4k_e/bash_5.3-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 llvm-21-linker-tools amd64 1:21.1.8-7+b1 [1247 kB] Fetched 1247 kB in 0s (92.7 MB/s) dpkg-name: info: moved 'llvm-21-linker-tools_1%3a21.1.8-7+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpqwd2ivve/llvm-21-linker-tools_21.1.8-7+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 python3-sphinx all 9.1.0-2 [503 kB] Fetched 503 kB in 0s (49.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpej9aibcy/python3-sphinx_9.1.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtext-wrapi18n-perl all 0.06-11 [7788 B] Fetched 7788 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjygika4x/libtext-wrapi18n-perl_0.06-11_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 coreutils amd64 9.10-1 [3142 kB] Fetched 3142 kB in 0s (142 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5hf4icxl/coreutils_9.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.31 [75.7 kB] Fetched 75.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7_z6lu35/libdebhelper-perl_13.31_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxrender1 amd64 1:0.9.12-1+b2 [27.7 kB] Fetched 27.7 kB in 0s (0 B/s) dpkg-name: info: moved 'libxrender1_1%3a0.9.12-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp9xiz_1n4/libxrender1_0.9.12-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 2.5.1-4 [33.6 kB] Fetched 33.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpayj460rn/pkgconf_2.5.1-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.15.0-2 [92.5 kB] Fetched 92.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2115q4qn/python3-typing-extensions_4.15.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-atomic1.90.0 amd64 1.90.0-6 [227 kB] Fetched 227 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu7e_1du4/libboost-atomic1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-15-base amd64 15.2.0-17 [36.8 kB] Fetched 36.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvyumj29n/gcc-15-base_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.12-1 [776 kB] Fetched 776 kB in 0s (70.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe5v8mmex/python3.13_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libspdlog1.15 amd64 1:1.15.3+ds-1+b2 [107 kB] Fetched 107 kB in 0s (0 B/s) dpkg-name: info: moved 'libspdlog1.15_1%3a1.15.3+ds-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpbtqbkfee/libspdlog1.15_1.15.3+ds-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gzip amd64 1.13-1 [138 kB] Fetched 138 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6u1hkpkn/gzip_1.13-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 texlive-latex-recommended all 2026.20260328-4 [8513 kB] Fetched 8513 kB in 0s (185 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0mcl8qhz/texlive-latex-recommended_2026.20260328-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Fetched 8812 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2liw0wty/dh-strip-nondeterminism_1.15.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-thread1.90-dev amd64 1.90.0-6 [263 kB] Fetched 263 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaii5ojzb/libboost-thread1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtinfo6 amd64 6.6+20251231-1+b1 [350 kB] Fetched 350 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqjoyi2ul/libtinfo6_6.6+20251231-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-9+b2 [63.8 kB] Fetched 63.8 kB in 0s (0 B/s) dpkg-name: info: moved 'libproc2-0_2%3a4.0.4-9+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp09xlaq52/libproc2-0_4.0.4-9+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fontconfig amd64 2.17.1-5 [191 kB] Fetched 191 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_zu71_93/fontconfig_2.17.1-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libthai-data all 0.1.30-1 [172 kB] Fetched 172 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpspgxx61b/libthai-data_0.1.30-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 build-essential amd64 12.12 [4624 B] Fetched 4624 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmparus9oo_/build-essential_12.12_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.6.2-1 [1517 kB] Fetched 1517 kB in 0s (102 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo6m731fi/openssl_3.6.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sgml-base all 1.31+nmu1 [10.9 kB] Fetched 10.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_6cklrtq/sgml-base_1.31+nmu1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-render0-dev amd64 1.17.0-2+b2 [118 kB] Fetched 118 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbz2efzca/libxcb-render0-dev_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-random1.90.0 amd64 1.90.0-6 [230 kB] Fetched 230 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfqbnulil/libboost-random1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxau-dev amd64 1:1.0.11-1+b2 [23.9 kB] Fetched 23.9 kB in 0s (0 B/s) dpkg-name: info: moved 'libxau-dev_1%3a1.0.11-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpa7_gqoo3/libxau-dev_1.0.11-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-3 [49.2 kB] Fetched 49.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnokjlssy/libpipeline1_1.5.8-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.21-1 [332 kB] Fetched 332 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc95dfna9/m4_1.4.21-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-dev amd64 3.13.9-3+b1 [29.8 kB] Fetched 29.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5pxpbv_9/python3-dev_3.13.9-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] Fetched 63.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8e9v_zja/rpcsvc-proto_1.4.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 debconf all 1.5.92 [123 kB] Fetched 123 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2uu395pb/debconf_1.5.92_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.12-1 [2267 kB] Fetched 2267 kB in 0s (128 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjpyy7cl8/python3.13-minimal_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libeigen3-dev all 3.4.0-5 [1034 kB] Fetched 1034 kB in 0s (83.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo9e49r8j/libeigen3-dev_3.4.0-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpdfbox-java all 1:1.8.16-5 [5527 kB] Fetched 5527 kB in 0s (167 MB/s) dpkg-name: info: moved 'libpdfbox-java_1%3a1.8.16-5_all.deb' to '/srv/rebuilderd/tmp/tmp15u_527p/libpdfbox-java_1.8.16-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxaw7 amd64 2:1.0.16-1+b2 [214 kB] Fetched 214 kB in 0s (0 B/s) dpkg-name: info: moved 'libxaw7_2%3a1.0.16-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpjtt6u1nk/libxaw7_1.0.16-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sysvinit-utils amd64 3.18-1 [29.7 kB] Fetched 29.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptzhupwqm/sysvinit-utils_3.18-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 imagemagick-7-common all 8:7.1.2.21+dfsg1-1 [71.8 kB] Fetched 71.8 kB in 0s (0 B/s) dpkg-name: info: moved 'imagemagick-7-common_8%3a7.1.2.21+dfsg1-1_all.deb' to '/srv/rebuilderd/tmp/tmpkx12xdjy/imagemagick-7-common_7.1.2.21+dfsg1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 findutils amd64 4.10.0-4 [700 kB] Fetched 700 kB in 0s (63.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu_ik9ptg/findutils_4.10.0-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 sphinx-common all 9.1.0-2 [698 kB] Fetched 698 kB in 0s (63.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeh87ci9p/sphinx-common_9.1.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpam-runtime all 1.7.0-5 [249 kB] Fetched 249 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5e6yq71w/libpam-runtime_1.7.0-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-program-options-dev amd64 1.90.0.2 [2880 B] Fetched 2880 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3x_bf0xw/libboost-program-options-dev_1.90.0.2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libc-bin amd64 2.42-15 [621 kB] Fetched 621 kB in 0s (59.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzrlt0fcj/libc-bin_2.42-15_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 postgresql-common-dev all 290 [66.1 kB] Fetched 66.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpehrzzgfx/postgresql-common-dev_290_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpangoft2-1.0-0 amd64 1.57.1-2 [52.8 kB] Fetched 52.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeywgm03n/libpangoft2-1.0-0_1.57.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpq5 amd64 18.3-1+b1 [258 kB] Fetched 258 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy365zxcy/libpq5_18.3-1+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libgssapi-krb5-2 amd64 1.22.1-2+b1 [137 kB] Fetched 137 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpav6xuu2p/libgssapi-krb5-2_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 bzip2 amd64 1.0.8-6+b2 [40.4 kB] Fetched 40.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6h6637ge/bzip2_1.0.8-6+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblzma5 amd64 5.8.3-1 [332 kB] Fetched 332 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8h6bbcz0/liblzma5_5.8.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-mdurl all 0.1.2-1 [9444 B] Fetched 9444 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw8govwpy/python3-mdurl_0.1.2-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdatrie1 amd64 0.2.14-1+b1 [39.5 kB] Fetched 39.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4nx8unwm/libdatrie1_0.2.14-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-iostreams1.90.0 amd64 1.90.0-6 [245 kB] Fetched 245 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqbkjad9x/libboost-iostreams1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgio-2.0-dev-bin amd64 2.88.1-2 [150 kB] Fetched 150 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa3eacgwv/libgio-2.0-dev-bin_2.88.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Fetched 1469 kB in 0s (102 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz6cml_lm/man-db_2.13.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.31 [932 kB] Fetched 932 kB in 0s (76.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsm9jtlk4/debhelper_13.31_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 passwd amd64 1:4.19.3-2 [1284 kB] Fetched 1284 kB in 0s (93.6 MB/s) dpkg-name: info: moved 'passwd_1%3a4.19.3-2_amd64.deb' to '/srv/rebuilderd/tmp/tmp77exevea/passwd_4.19.3-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxpm4 amd64 1:3.5.19-1 [58.9 kB] Fetched 58.9 kB in 0s (0 B/s) dpkg-name: info: moved 'libxpm4_1%3a3.5.19-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpsi_femj2/libxpm4_3.5.19-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libc-dev-bin amd64 2.42-15 [37.7 kB] Fetched 37.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv8f1lqt0/libc-dev-bin_2.42-15_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.13.9-3+b1 [8348 B] Fetched 8348 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprzng3ru5/libpython3-stdlib_3.13.9-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgdbm6t64 amd64 1.26-1+b2 [77.7 kB] Fetched 77.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcc5ij9ow/libgdbm6t64_1.26-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-regex-dev amd64 1.90.0.2 [3124 B] Fetched 3124 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppstje22f/libboost-regex-dev_1.90.0.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libssl-dev amd64 3.6.2-1 [3019 kB] Fetched 3019 kB in 0s (97.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvwhuoa3i/libssl-dev_3.6.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 hostname amd64 3.25 [11.0 kB] Fetched 11.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfooctj70/hostname_3.25_amd64.deb' Downloading dependency 126 of 510: libthai0:amd64=0.1.30-1+b1 Downloading dependency 127 of 510: liblqr-1-0:amd64=0.4.2-2.2+b1 Downloading dependency 128 of 510: libpam-modules:amd64=1.7.0-5+b2 Downloading dependency 129 of 510: libx11-dev:amd64=2:1.8.13-1 Downloading dependency 130 of 510: libsvtav1enc4:amd64=4.1.0+dfsg-1 Downloading dependency 131 of 510: libwebpdemux2:amd64=1.5.0-0.1+b2 Downloading dependency 132 of 510: python3-uc-micro:amd64=2.0.0-1 Downloading dependency 133 of 510: libmagic1t64:amd64=1:5.46-5+b2 Downloading dependency 134 of 510: fonts-lmodern:amd64=2.005-1 Downloading dependency 135 of 510: intltool-debian:amd64=0.35.0+20060710.6 Downloading dependency 136 of 510: libxcb1:amd64=1.17.0-2+b2 Downloading dependency 137 of 510: libboost-program-options1.90.0:amd64=1.90.0-6 Downloading dependency 138 of 510: libboost-chrono1.90-dev:amd64=1.90.0-6 Downloading dependency 139 of 510: libboost-regex1.90.0:amd64=1.90.0-6 Downloading dependency 140 of 510: libbrotli-dev:amd64=1.2.0-3 Downloading dependency 141 of 510: libbz2-dev:amd64=1.0.8-6+b2 Downloading dependency 142 of 510: libpython3.13-dev:amd64=3.13.12-1 Downloading dependency 143 of 510: init-system-helpers:amd64=1.69 Downloading dependency 144 of 510: zlib1g:amd64=1:1.3.dfsg+really1.3.2-3 Downloading dependency 145 of 510: libcap2:amd64=1:2.78-1 Downloading dependency 146 of 510: x11proto-dev:amd64=2025.1-1 Downloading dependency 147 of 510: libpcre2-posix3:amd64=10.46-1+b2 Downloading dependency 148 of 510: shared-mime-info:amd64=2.4-5+b3 Downloading dependency 149 of 510: libzzip-0-13t64:amd64=0.13.78+dfsg.1-0.2+b1 Downloading dependency 150 of 510: libcoordgen-dev:amd64=3.0.2-4 Downloading dependency 151 of 510: libxml2-dev:amd64=2.15.2+dfsg-0.1 Downloading dependency 152 of 510: cmake:amd64=4.3.2-1 Downloading dependency 153 of 510: binutils:amd64=2.46-3 Downloading dependency 154 of 510: sed:amd64=4.9-3 Downloading dependency 155 of 510: libpcre2-8-0:amd64=10.46-1+b2 Downloading dependency 156 of 510: perl-modules-5.40:amd64=5.40.1-7 Downloading dependency 157 of 510: ca-certificates:amd64=20260223 Downloading dependency 158 of 510: gcc-15:amd64=15.2.0-17 Downloading dependency 159 of 510: libaom3:amd64=3.13.1-2+b1 Downloading dependency 160 of 510: libboost-python-dev:amd64=1.90.0.2 Downloading dependency 161 of 510: libcommons-logging-java:amd64=1.3.0-2 Downloading dependency 162 of 510: libglib2.0-dev-bin:amd64=2.88.1-2 Downloading dependency 163 of 510: librsvg2-bin:amd64=2.62.1+dfsg-1 Downloading dependency 164 of 510: libsasl2-modules-db:amd64=2.1.28+dfsg1-11 Downloading dependency 165 of 510: liblua5.4-0:amd64=5.4.8-1+b2 Downloading dependency 166 of 510: libxml2-16:amd64=2.15.2+dfsg-0.1 Downloading dependency 167 of 510: libgcc-s1:amd64=16-20260425-1 Downloading dependency 168 of 510: tzdata:amd64=2026b-1 Downloading dependency 169 of 510: libldap2:amd64=2.6.10+dfsg-1+b2 Downloading dependency 170 of 510: libfontconfig-dev:amd64=2.17.1-5 Downloading dependency 171 of 510: libpixman-1-dev:amd64=0.46.4-1+b2 Downloading dependency 172 of 510: x11-common:amd64=1:7.7+26 Downloading dependency 173 of 510: libffi8:amd64=3.5.2-4 Downloading dependency 174 of 510: libxcb-shm0:amd64=1.17.0-2+b2 Downloading dependency 175 of 510: libice-dev:amd64=2:1.1.1-1+b2 Downloading dependency 176 of 510: glycin-thumbnailers:amd64=2.0.8-1 Downloading dependency 177 of 510: libboost-program-options1.90-dev:amd64=1.90.0-6 Downloading dependency 178 of 510: libssh2-1t64:amd64=1.11.1-2 Downloading dependency 179 of 510: libxcb-shm0-dev:amd64=1.17.0-2+b2 Downloading dependency 180 of 510: libpcre2-16-0:amd64=10.46-1+b2 Downloading dependency 181 of 510: make:amd64=4.4.1-3 Downloading dependency 182 of 510: libjbig0:amd64=2.1-6.1+b3 Downloading dependency 183 of 510: libfmt10:amd64=10.1.1+ds1-4+b2 Downloading dependency 184 of 510: xml-core:amd64=0.20 Downloading dependency 185 of 510: texlive-latex-base:amd64=2026.20260328-4 Downloading dependency 186 of 510: sensible-utils:amd64=0.0.26 Downloading dependency 187 of 510: t1utils:amd64=1.41-4 Downloading dependency 188 of 510: bash:amd64=5.3-3 Downloading dependency 189 of 510: llvm-21-linker-tools:amd64=1:21.1.8-7+b1 Downloading dependency 190 of 510: python3-sphinx:amd64=9.1.0-2 Downloading dependency 191 of 510: libtext-wrapi18n-perl:amd64=0.06-11 Downloading dependency 192 of 510: coreutils:amd64=9.10-1 Downloading dependency 193 of 510: libdebhelper-perl:amd64=13.31 Downloading dependency 194 of 510: libxrender1:amd64=1:0.9.12-1+b2 Downloading dependency 195 of 510: pkgconf:amd64=2.5.1-4 Downloading dependency 196 of 510: python3-typing-extensions:amd64=4.15.0-2 Downloading dependency 197 of 510: libboost-atomic1.90.0:amd64=1.90.0-6 Downloading dependency 198 of 510: gcc-15-base:amd64=15.2.0-17 Downloading dependency 199 of 510: python3.13:amd64=3.13.12-1 Downloading dependency 200 of 510: libspdlog1.15:amd64=1:1.15.3+ds-1+b2 Downloading dependency 201 of 510: gzip:amd64=1.13-1 Downloading dependency 202 of 510: texlive-latex-recommended:amd64=2026.20260328-4 Downloading dependency 203 of 510: dh-strip-nondeterminism:amd64=1.15.0-1 Downloading dependency 204 of 510: libboost-thread1.90-dev:amd64=1.90.0-6 Downloading dependency 205 of 510: libtinfo6:amd64=6.6+20251231-1+b1 Downloading dependency 206 of 510: libproc2-0:amd64=2:4.0.4-9+b2 Downloading dependency 207 of 510: fontconfig:amd64=2.17.1-5 Downloading dependency 208 of 510: libthai-data:amd64=0.1.30-1 Downloading dependency 209 of 510: build-essential:amd64=12.12 Downloading dependency 210 of 510: openssl:amd64=3.6.2-1 Downloading dependency 211 of 510: sgml-base:amd64=1.31+nmu1 Downloading dependency 212 of 510: libxcb-render0-dev:amd64=1.17.0-2+b2 Downloading dependency 213 of 510: libboost-random1.90.0:amd64=1.90.0-6 Downloading dependency 214 of 510: libxau-dev:amd64=1:1.0.11-1+b2 Downloading dependency 215 of 510: libpipeline1:amd64=1.5.8-3 Downloading dependency 216 of 510: m4:amd64=1.4.21-1 Downloading dependency 217 of 510: python3-dev:amd64=3.13.9-3+b1 Downloading dependency 218 of 510: rpcsvc-proto:amd64=1.4.3-1 Downloading dependency 219 of 510: debconf:amd64=1.5.92 Downloading dependency 220 of 510: python3.13-minimal:amd64=3.13.12-1 Downloading dependency 221 of 510: libeigen3-dev:amd64=3.4.0-5 Downloading dependency 222 of 510: libpdfbox-java:amd64=1:1.8.16-5 Downloading dependency 223 of 510: libxaw7:amd64=2:1.0.16-1+b2 Downloading dependency 224 of 510: sysvinit-utils:amd64=3.18-1 Downloading dependency 225 of 510: imagemagick-7-common:amd64=8:7.1.2.21+dfsg1-1 Downloading dependency 226 of 510: findutils:amd64=4.10.0-4 Downloading dependency 227 of 510: sphinx-common:amd64=9.1.0-2 Downloading dependency 228 of 510: libpam-runtime:amd64=1.7.0-5 Downloading dependency 229 of 510: libboost-program-options-dev:amd64=1.90.0.2 Downloading dependency 230 of 510: libc-bin:amd64=2.42-15 Downloading dependency 231 of 510: postgresql-common-dev:amd64=290 Downloading dependency 232 of 510: libpangoft2-1.0-0:amd64=1.57.1-2 Downloading dependency 233 of 510: libpq5:amd64=18.3-1+b1 Downloading dependency 234 of 510: libgssapi-krb5-2:amd64=1.22.1-2+b1 Downloading dependency 235 of 510: bzip2:amd64=1.0.8-6+b2 Downloading dependency 236 of 510: liblzma5:amd64=5.8.3-1 Downloading dependency 237 of 510: python3-mdurl:amd64=0.1.2-1 Downloading dependency 238 of 510: libdatrie1:amd64=0.2.14-1+b1 Downloading dependency 239 of 510: libboost-iostreams1.90.0:amd64=1.90.0-6 Downloading dependency 240 of 510: libgio-2.0-dev-bin:amd64=2.88.1-2 Downloading dependency 241 of 510: man-db:amd64=2.13.1-1 Downloading dependency 242 of 510: debhelper:amd64=13.31 Downloading dependency 243 of 510: passwd:amd64=1:4.19.3-2 Downloading dependency 244 of 510: libxpm4:amd64=1:3.5.19-1 Downloading dependency 245 of 510: libc-dev-bin:amd64=2.42-15 Downloading dependency 246 of 510: libpython3-stdlib:amd64=3.13.9-3+b1 Downloading dependency 247 of 510: libgdbm6t64:amd64=1.26-1+b2 Downloading dependency 248 of 510: libboost-regex-dev:amd64=1.90.0.2 Downloading dependency 249 of 510: libssl-dev:amd64=3.6.2-1 Downloading dependency 250 of 510: hostname:amd64=3.25 Downloading dependency 251 of 510: libncurses-dev:amd64=6.6+20251231-1+b1Get:1 http://deb.debian.org/debian unstable/main amd64 libncurses-dev amd64 6.6+20251231-1+b1 [356 kB] Fetched 356 kB in 0s (32.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr_f11ch5/libncurses-dev_6.6+20251231-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libyuv0 amd64 0.0.1922.20260106-1+b1 [175 kB] Fetched 175 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuwxx9lns/libyuv0_0.0.1922.20260106-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 docutils-common all 0.22.4+dfsg-1 [128 kB] Fetched 128 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkcvvj1ah/docutils-common_0.22.4+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-11 [55.2 kB] Fetched 55.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2_m87_pl/libsasl2-2_2.1.28+dfsg1-11_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxt6t64 amd64 1:1.2.1-1.3+b2 [191 kB] Fetched 191 kB in 0s (0 B/s) dpkg-name: info: moved 'libxt6t64_1%3a1.2.1-1.3+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpjakzb2aw/libxt6t64_1.2.1-1.3+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 preview-latex-style all 13.2-1.1 [350 kB] Fetched 350 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvhyr_1jo/preview-latex-style_13.2-1.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Fetched 577 kB in 0s (52.2 MB/s) dpkg-name: info: moved 'xfonts-encodings_1%3a1.0.4-2.2_all.deb' to '/srv/rebuilderd/tmp/tmpaqgbgytf/xfonts-encodings_1.0.4-2.2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblerc4 amd64 4.1.0+ds-1 [199 kB] Fetched 199 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0ctdjolr/liblerc4_4.1.0+ds-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-iniconfig all 2.1.0-2 [7540 B] Fetched 7540 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxwjc0s_r/python3-iniconfig_2.1.0-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 imagemagick-7.q16 amd64 8:7.1.2.21+dfsg1-1 [731 kB] Fetched 731 kB in 0s (63.1 MB/s) dpkg-name: info: moved 'imagemagick-7.q16_8%3a7.1.2.21+dfsg1-1_amd64.deb' to '/srv/rebuilderd/tmp/tmp7_olej4s/imagemagick-7.q16_7.1.2.21+dfsg1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmount1 amd64 2.42-6 [213 kB] Fetched 213 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp00i7o3ds/libmount1_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 latexmk all 1:4.88~ds-1 [515 kB] Fetched 515 kB in 0s (49.0 MB/s) dpkg-name: info: moved 'latexmk_1%3a4.88~ds-1_all.deb' to '/srv/rebuilderd/tmp/tmp5wddptyj/latexmk_4.88~ds-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pytest all 9.0.3-1 [273 kB] Fetched 273 kB in 0s (21.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuhsclmxf/python3-pytest_9.0.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libheif-plugin-dav1d amd64 1.21.2-4 [19.5 kB] Fetched 19.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphwbd4fq4/libheif-plugin-dav1d_1.21.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 uuid-dev amd64 2.42-6 [44.5 kB] Fetched 44.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsrt819d9/uuid-dev_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxapian30 amd64 1.4.31-2 [1172 kB] Fetched 1172 kB in 0s (87.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy4is01vu/libxapian30_1.4.31-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Fetched 10.8 kB in 0s (1008 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjgkgcbhw/libcommons-parent-java_56-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 perl amd64 5.40.1-7+b1 [264 kB] Fetched 264 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpps2_9tfp/perl_5.40.1-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-requests all 2.32.5+dfsg-1 [72.4 kB] Fetched 72.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2d69kwov/python3-requests_2.32.5+dfsg-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libubsan1 amd64 16-20260425-1 [1136 kB] Fetched 1136 kB in 0s (86.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzn6f8y3z/libubsan1_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pandas-lib amd64 2.3.3+dfsg-3+b1 [6581 kB] Fetched 6581 kB in 0s (172 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp27z0lpa4/python3-pandas-lib_2.3.3+dfsg-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 tex-gyre all 20180621-7 [6209 kB] Fetched 6209 kB in 0s (168 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqntyj6lv/tex-gyre_20180621-7_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsemanage-common all 3.10-1 [6776 B] Fetched 6776 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdov6lu4p/libsemanage-common_3.10-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libapache-pom-java all 33-2 [5852 B] Fetched 5852 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw96nmkng/libapache-pom-java_33-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.69.0-1 [89.0 kB] Fetched 89.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxqzg_bvw/libnghttp2-14_1.69.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 girepository-tools amd64 2.88.1-2 [133 kB] Fetched 133 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy2e_l96z/girepository-tools_2.88.1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 liblsan0 amd64 16-20260425-1 [1280 kB] Fetched 1280 kB in 0s (66.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpienatul_/liblsan0_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libimagequant0 amd64 4.4.1-1+b2 [255 kB] Fetched 255 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0p39ljkr/libimagequant0_4.4.1-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 flex amd64 2.6.4-8.2+b5 [425 kB] Fetched 425 kB in 0s (41.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjy1jxtfd/flex_2.6.4-8.2+b5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblzo2-2 amd64 2.10-3+b2 [57.4 kB] Fetched 57.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_bo9j6bs/liblzo2-2_2.10-3+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2+b2 [69.0 kB] Fetched 69.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz0ed7u01/libuchardet0_0.0.8-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dh-python all 7.20260309 [114 kB] Fetched 114 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwqfp9lii/dh-python_7.20260309_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmaeparser1 amd64 1.3.3-4+b1 [95.1 kB] Fetched 95.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv6ol8kon/libmaeparser1_1.3.3-4+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-recommonmark all 0.7.1+ds-8 [17.6 kB] Fetched 17.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr_w5s4of/python3-recommonmark_0.7.1+ds-8_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 python3-markdown-it all 4.0.0-1 [59.2 kB] Fetched 59.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqa68hzhv/python3-markdown-it_4.0.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.90-dev amd64 1.90.0-6 [343 kB] Fetched 343 kB in 0s (33.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4lnxak79/libboost-regex1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libncursesw6 amd64 6.6+20251231-1+b1 [136 kB] Fetched 136 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdtw_uw3e/libncursesw6_6.6+20251231-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-linkify-it all 2.1.0-1 [18.7 kB] Fetched 18.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp57by70m2/python3-linkify-it_2.1.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 grep amd64 3.12-1 [443 kB] Fetched 443 kB in 0s (37.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0_y40r05/grep_3.12-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libcc1-0 amd64 16-20260425-1 [46.4 kB] Fetched 46.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmuqktkkf/libcc1-0_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfftw3-double3 amd64 3.3.10-2+b2 [775 kB] Fetched 775 kB in 0s (65.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiund428x/libfftw3-double3_3.3.10-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libclang-common-21-dev amd64 1:21.1.8-7+b1 [767 kB] Fetched 767 kB in 0s (64.4 MB/s) dpkg-name: info: moved 'libclang-common-21-dev_1%3a21.1.8-7+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpyp58gmu3/libclang-common-21-dev_21.1.8-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-container1.90.0 amd64 1.90.0-6 [252 kB] Fetched 252 kB in 0s (21.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpulsc9bm3/libboost-container1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.2-2 [242 kB] Fetched 242 kB in 0s (23.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9mtunxpf/gettext-base_0.23.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libllvm21 amd64 1:21.1.8-7+b1 [28.2 MB] Fetched 28.2 MB in 0s (79.1 MB/s) dpkg-name: info: moved 'libllvm21_1%3a21.1.8-7+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpmi709smh/libllvm21_21.1.8-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcairo2-dev amd64 1.18.4-3+b1 [41.8 kB] Fetched 41.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf8l6qrp6/libcairo2-dev_1.18.4-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 util-linux amd64 2.42-6 [1220 kB] Fetched 1220 kB in 0s (87.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7or54en5/util-linux_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libselinux1 amd64 3.10-1 [85.4 kB] Fetched 85.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8j7ei6z8/libselinux1_3.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjansson4 amd64 2.14-2+b4 [40.1 kB] Fetched 40.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqr_fm6nr/libjansson4_2.14-2+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.12-1 [866 kB] Fetched 866 kB in 0s (75.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpghggmry8/libpython3.13-minimal_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-atomic1.90-dev amd64 1.90.0-6 [228 kB] Fetched 228 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9udvb_3n/libboost-atomic1.90-dev_1.90.0-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libasan8 amd64 16-20260425-1 [2888 kB] Fetched 2888 kB in 0s (140 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa1vvt8l8/libasan8_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-graph1.90-dev amd64 1.90.0-6 [378 kB] Fetched 378 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv0nz_d50/libboost-graph1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost1.90-dev amd64 1.90.0-6 [11.3 MB] Fetched 11.3 MB in 0s (134 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprs7opbg2/libboost1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dpkg-dev all 1.23.7 [1318 kB] Fetched 1318 kB in 0s (96.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy6qmhag4/dpkg-dev_1.23.7_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-11+b1 [709 kB] Fetched 709 kB in 0s (63.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeq62baya/libdb5.3t64_5.3.28+dfsg2-11+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnuma1 amd64 2.0.19-1+b2 [22.0 kB] Fetched 22.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc_2dqsqx/libnuma1_2.0.19-1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 base-files amd64 14 [72.9 kB] Fetched 72.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpesoqaw1j/base-files_14_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 postgresql-common all 290 [105 kB] Fetched 105 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz9yr5gc6/postgresql-common_290_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblzma-dev amd64 5.8.3-1 [369 kB] Fetched 369 kB in 0s (34.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4l3spoqv/liblzma-dev_5.8.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3.13 amd64 3.13.12-1 [2187 kB] Fetched 2187 kB in 0s (124 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd70ffpzf/libpython3.13_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 diffutils amd64 1:3.12-1 [405 kB] Fetched 405 kB in 0s (0 B/s) dpkg-name: info: moved 'diffutils_1%3a3.12-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpahx37mu5/diffutils_3.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xtrans-dev all 1.6.0-1 [93.5 kB] Fetched 93.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo_nhhlfh/xtrans-dev_1.6.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-x86-64-linux-gnu amd64 4:15.2.0-5+b1 [1440 B] Fetched 1440 B in 0s (0 B/s) dpkg-name: info: moved 'gcc-x86-64-linux-gnu_4%3a15.2.0-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmphjpt475s/gcc-x86-64-linux-gnu_15.2.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.24.1-1 [1336 kB] Fetched 1336 kB in 0s (92.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2bb11mtt/groff-base_1.24.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libheif1 amd64 1.21.2-4 [649 kB] Fetched 649 kB in 0s (59.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp849kmkq5/libheif1_1.21.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 bison amd64 2:3.8.2+dfsg-1+b3 [1170 kB] Fetched 1170 kB in 0s (87.9 MB/s) dpkg-name: info: moved 'bison_2%3a3.8.2+dfsg-1+b3_amd64.deb' to '/srv/rebuilderd/tmp/tmp3m6wtkfp/bison_3.8.2+dfsg-1+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libabsl20260107 amd64 20260107.0-5 [549 kB] Fetched 549 kB in 0s (51.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_0069zha/libabsl20260107_20260107.0-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libkpathsea6 amd64 2026.20260303.78225+ds-3 [158 kB] Fetched 158 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoyvu__71/libkpathsea6_2026.20260303.78225+ds-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b4 [50.7 kB] Fetched 50.7 kB in 0s (0 B/s) dpkg-name: info: moved 'libxext6_2%3a1.3.4-1+b4_amd64.deb' to '/srv/rebuilderd/tmp/tmpc96p43gw/libxext6_1.3.4-1+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglib2.0-0t64 amd64 2.88.1-2 [1536 kB] Fetched 1536 kB in 0s (108 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3uowzrkp/libglib2.0-0t64_2.88.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dpkg amd64 1.23.7 [1531 kB] Fetched 1531 kB in 0s (104 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_t0amfbw/dpkg_1.23.7_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcoordgen3 amd64 3.0.2-4 [214 kB] Fetched 214 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpclgb634m/libcoordgen3_3.0.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 tex-common all 6.20 [29.7 kB] Fetched 29.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcerrlb_x/tex-common_6.20_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libz3-dev amd64 4.13.3-1+b2 [105 kB] Fetched 105 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjr2w54w3/libz3-dev_4.13.3-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libharfbuzz0b amd64 12.3.2-2+b2 [513 kB] Fetched 513 kB in 0s (48.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm_yrndud/libharfbuzz0b_12.3.2-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpng-dev amd64 1.6.58-1 [372 kB] Fetched 372 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi7lemjkz/libpng-dev_1.6.58-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Fetched 108 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpilv5qvcx/python3-chardet_5.2.0+dfsg-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 postgresql-server-dev-18 amd64 18.3-1+b1 [1395 kB] Fetched 1395 kB in 0s (67.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb3wh08ok/postgresql-server-dev-18_18.3-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-idna all 3.11-1 [41.7 kB] Fetched 41.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkqdu_389/python3-idna_3.11-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.13.9-3+b1 [25.4 kB] Fetched 25.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps8mn_udz/python3_3.13.9-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.18.1-4 [877 kB] Fetched 877 kB in 0s (73.5 MB/s) dpkg-name: info: moved 'automake_1%3a1.18.1-4_all.deb' to '/srv/rebuilderd/tmp/tmpxd_f87ao/automake_1.18.1-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcairo-gobject2 amd64 1.18.4-3+b1 [129 kB] Fetched 129 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphsuawsgc/libcairo-gobject2_1.18.4-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsm6 amd64 2:1.2.6-1+b2 [37.9 kB] Fetched 37.9 kB in 0s (3506 kB/s) dpkg-name: info: moved 'libsm6_2%3a1.2.6-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpfy68dkx0/libsm6_1.2.6-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsmartcols1 amd64 2.42-6 [144 kB] Fetched 144 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnkpv2ab9/libsmartcols1_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-dateutil all 2.9.0-4 [79.4 kB] Fetched 79.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppzknp0rt/python3-dateutil_2.9.0-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-thread-dev amd64 1.90.0.2 [2880 B] Fetched 2880 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpphmx151v/libboost-thread-dev_1.90.0.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ncurses-bin amd64 6.6+20251231-1+b1 [442 kB] Fetched 442 kB in 0s (40.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgsxqqqqa/ncurses-bin_6.6+20251231-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libacl1 amd64 2.3.2-3 [32.7 kB] Fetched 32.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmjq4xutw/libacl1_2.3.2-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libisl23 amd64 0.27-2 [664 kB] Fetched 664 kB in 0s (60.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9fr9l_th/libisl23_0.27-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgprofng0 amd64 2.46-3 [820 kB] Fetched 820 kB in 0s (68.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo4co7ece/libgprofng0_2.46-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libicu78 amd64 78.3-1 [10.0 MB] Fetched 10.0 MB in 0s (152 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp76c41w9w/libicu78_78.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnettle8t64 amd64 3.10.2-1+b1 [305 kB] Fetched 305 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph74edrew/libnettle8t64_3.10.2-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-roman-numerals all 4.1.0-1 [9196 B] Fetched 9196 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm6qunh0g/python3-roman-numerals_4.1.0-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libkrb5-3 amd64 1.22.1-2+b1 [336 kB] Fetched 336 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppu6w1qui/libkrb5-3_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libclang-cpp21 amd64 1:21.1.8-7+b1 [12.8 MB] Fetched 12.8 MB in 0s (119 MB/s) dpkg-name: info: moved 'libclang-cpp21_1%3a21.1.8-7+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp6n22p965/libclang-cpp21_21.1.8-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-alabaster all 1.0.0-1 [20.4 kB] Fetched 20.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprm8h4wo6/python3-alabaster_1.0.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-defusedxml all 0.7.1-3 [43.4 kB] Fetched 43.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppi94mt18/python3-defusedxml_0.7.1-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libyaml-0-2 amd64 0.2.5-2+b1 [53.8 kB] Fetched 53.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqvkzhm9m/libyaml-0-2_0.2.5-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 librav1e0.8 amd64 0.8.1-10 [973 kB] Fetched 973 kB in 0s (81.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzxody2c2/librav1e0.8_0.8.1-10_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtexlua53-5 amd64 2026.20260303.78225+ds-3 [113 kB] Fetched 113 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0qzxodfg/libtexlua53-5_2026.20260303.78225+ds-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fontconfig-config amd64 2.17.1-5 [56.1 kB] Fetched 56.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfss65wwq/fontconfig-config_2.17.1-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfontbox-java all 1:1.8.16-5 [211 kB] Fetched 211 kB in 0s (0 B/s) dpkg-name: info: moved 'libfontbox-java_1%3a1.8.16-5_all.deb' to '/srv/rebuilderd/tmp/tmpd8p86tdm/libfontbox-java_1.8.16-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 2.5.1-4 [35.9 kB] Fetched 35.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6qndsdlh/pkgconf-bin_2.5.1-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblapack3 amd64 3.12.1-7+b2 [2546 kB] Fetched 2546 kB in 0s (136 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppqr5epvi/liblapack3_3.12.1-7+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.195-1 [58.1 kB] Fetched 58.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpih3vec_1/libelf1t64_0.195-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 g++-15 amd64 15.2.0-17 [28.0 kB] Fetched 28.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgtfbbmvi/g++-15_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cpp amd64 4:15.2.0-5+b1 [1568 B] Fetched 1568 B in 0s (0 B/s) dpkg-name: info: moved 'cpp_4%3a15.2.0-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpd73nrt_d/cpp_15.2.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblcms2-2 amd64 2.19.1-1 [164 kB] Fetched 164 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwmcg54bt/liblcms2-2_2.19.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglib2.0-dev amd64 2.88.1-2 [38.2 kB] Fetched 38.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2m8bhvvm/libglib2.0-dev_2.88.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libuuid1 amd64 2.42-6 [33.1 kB] Fetched 33.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpq1jfyzzd/libuuid1_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pandas all 2.3.3+dfsg-3 [2935 kB] Fetched 2935 kB in 0s (143 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4lwy8frp/python3-pandas_2.3.3+dfsg-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libatomic1 amd64 16-20260425-1 [10.5 kB] Fetched 10.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5oma51qv/libatomic1_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libraqm0 amd64 0.10.5-1 [13.6 kB] Fetched 13.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk8kvhait/libraqm0_0.10.5-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libaudit-common all 1:4.1.2-1 [14.3 kB] Fetched 14.3 kB in 0s (0 B/s) dpkg-name: info: moved 'libaudit-common_1%3a4.1.2-1_all.deb' to '/srv/rebuilderd/tmp/tmpvjhykswp/libaudit-common_4.1.2-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmaeparser-dev amd64 1.3.3-4+b1 [13.0 kB] Fetched 13.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz00wb022/libmaeparser-dev_1.3.3-4+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-thread1.90.0 amd64 1.90.0-6 [255 kB] Fetched 255 kB in 0s (19.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0f_q2r8h/libboost-thread1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgio-2.0-dev amd64 2.88.1-2 [1697 kB] Fetched 1697 kB in 0s (108 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc678k_34/libgio-2.0-dev_2.88.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-numpy1.90-dev amd64 1.90.0-6 [242 kB] Fetched 242 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpftxkjrc8/libboost-numpy1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxi6 amd64 2:1.8.2-2+b1 [79.9 kB] Fetched 79.9 kB in 0s (0 B/s) dpkg-name: info: moved 'libxi6_2%3a1.8.2-2+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmprqfbd1ap/libxi6_1.8.2-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhwy1t64 amd64 1.3.0-2+b1 [707 kB] Fetched 707 kB in 0s (61.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt_pphcin/libhwy1t64_1.3.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgdk-pixbuf2.0-common all 2.44.6+dfsg-2 [313 kB] Fetched 313 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8e76t41u/libgdk-pixbuf2.0-common_2.44.6+dfsg-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsm-dev amd64 2:1.2.6-1+b2 [40.3 kB] Fetched 40.3 kB in 0s (0 B/s) dpkg-name: info: moved 'libsm-dev_2%3a1.2.6-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpghvh_k1g/libsm-dev_1.2.6-1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libitm1 amd64 16-20260425-1 [27.0 kB] Fetched 27.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5rz2cshy/libitm1_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 native-architecture all 0.2.6 [2264 B] Fetched 2264 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpszzwm53b/native-architecture_0.2.6_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 librhash1 amd64 1.4.6-1.1+b1 [135 kB] Fetched 135 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwpc5cm2n/librhash1_1.4.6-1.1+b1_amd64.deb' Downloading dependency 252 of 510: libyuv0:amd64=0.0.1922.20260106-1+b1 Downloading dependency 253 of 510: docutils-common:amd64=0.22.4+dfsg-1 Downloading dependency 254 of 510: libsasl2-2:amd64=2.1.28+dfsg1-11 Downloading dependency 255 of 510: libxt6t64:amd64=1:1.2.1-1.3+b2 Downloading dependency 256 of 510: preview-latex-style:amd64=13.2-1.1 Downloading dependency 257 of 510: xfonts-encodings:amd64=1:1.0.4-2.2 Downloading dependency 258 of 510: liblerc4:amd64=4.1.0+ds-1 Downloading dependency 259 of 510: python3-iniconfig:amd64=2.1.0-2 Downloading dependency 260 of 510: imagemagick-7.q16:amd64=8:7.1.2.21+dfsg1-1 Downloading dependency 261 of 510: libmount1:amd64=2.42-6 Downloading dependency 262 of 510: latexmk:amd64=1:4.88~ds-1 Downloading dependency 263 of 510: python3-pytest:amd64=9.0.3-1 Downloading dependency 264 of 510: libheif-plugin-dav1d:amd64=1.21.2-4 Downloading dependency 265 of 510: uuid-dev:amd64=2.42-6 Downloading dependency 266 of 510: libxapian30:amd64=1.4.31-2 Downloading dependency 267 of 510: libcommons-parent-java:amd64=56-1 Downloading dependency 268 of 510: perl:amd64=5.40.1-7+b1 Downloading dependency 269 of 510: python3-requests:amd64=2.32.5+dfsg-1 Downloading dependency 270 of 510: libubsan1:amd64=16-20260425-1 Downloading dependency 271 of 510: python3-pandas-lib:amd64=2.3.3+dfsg-3+b1 Downloading dependency 272 of 510: tex-gyre:amd64=20180621-7 Downloading dependency 273 of 510: libsemanage-common:amd64=3.10-1 Downloading dependency 274 of 510: libapache-pom-java:amd64=33-2 Downloading dependency 275 of 510: libnghttp2-14:amd64=1.69.0-1 Downloading dependency 276 of 510: girepository-tools:amd64=2.88.1-2 Downloading dependency 277 of 510: liblsan0:amd64=16-20260425-1 Downloading dependency 278 of 510: libimagequant0:amd64=4.4.1-1+b2 Downloading dependency 279 of 510: flex:amd64=2.6.4-8.2+b5 Downloading dependency 280 of 510: liblzo2-2:amd64=2.10-3+b2 Downloading dependency 281 of 510: libuchardet0:amd64=0.0.8-2+b2 Downloading dependency 282 of 510: dh-python:amd64=7.20260309 Downloading dependency 283 of 510: libmaeparser1:amd64=1.3.3-4+b1 Downloading dependency 284 of 510: python3-recommonmark:amd64=0.7.1+ds-8 Downloading dependency 285 of 510: python3-markdown-it:amd64=4.0.0-1 Downloading dependency 286 of 510: libboost-regex1.90-dev:amd64=1.90.0-6 Downloading dependency 287 of 510: libncursesw6:amd64=6.6+20251231-1+b1 Downloading dependency 288 of 510: python3-linkify-it:amd64=2.1.0-1 Downloading dependency 289 of 510: grep:amd64=3.12-1 Downloading dependency 290 of 510: libcc1-0:amd64=16-20260425-1 Downloading dependency 291 of 510: libfftw3-double3:amd64=3.3.10-2+b2 Downloading dependency 292 of 510: libclang-common-21-dev:amd64=1:21.1.8-7+b1 Downloading dependency 293 of 510: libboost-container1.90.0:amd64=1.90.0-6 Downloading dependency 294 of 510: gettext-base:amd64=0.23.2-2 Downloading dependency 295 of 510: libllvm21:amd64=1:21.1.8-7+b1 Downloading dependency 296 of 510: libcairo2-dev:amd64=1.18.4-3+b1 Downloading dependency 297 of 510: util-linux:amd64=2.42-6 Downloading dependency 298 of 510: libselinux1:amd64=3.10-1 Downloading dependency 299 of 510: libjansson4:amd64=2.14-2+b4 Downloading dependency 300 of 510: libpython3.13-minimal:amd64=3.13.12-1 Downloading dependency 301 of 510: libboost-atomic1.90-dev:amd64=1.90.0-6 Downloading dependency 302 of 510: libasan8:amd64=16-20260425-1 Downloading dependency 303 of 510: libboost-graph1.90-dev:amd64=1.90.0-6 Downloading dependency 304 of 510: libboost1.90-dev:amd64=1.90.0-6 Downloading dependency 305 of 510: dpkg-dev:amd64=1.23.7 Downloading dependency 306 of 510: libdb5.3t64:amd64=5.3.28+dfsg2-11+b1 Downloading dependency 307 of 510: libnuma1:amd64=2.0.19-1+b2 Downloading dependency 308 of 510: base-files:amd64=14 Downloading dependency 309 of 510: postgresql-common:amd64=290 Downloading dependency 310 of 510: liblzma-dev:amd64=5.8.3-1 Downloading dependency 311 of 510: libpython3.13:amd64=3.13.12-1 Downloading dependency 312 of 510: diffutils:amd64=1:3.12-1 Downloading dependency 313 of 510: xtrans-dev:amd64=1.6.0-1 Downloading dependency 314 of 510: gcc-x86-64-linux-gnu:amd64=4:15.2.0-5+b1 Downloading dependency 315 of 510: groff-base:amd64=1.24.1-1 Downloading dependency 316 of 510: libheif1:amd64=1.21.2-4 Downloading dependency 317 of 510: bison:amd64=2:3.8.2+dfsg-1+b3 Downloading dependency 318 of 510: libabsl20260107:amd64=20260107.0-5 Downloading dependency 319 of 510: libkpathsea6:amd64=2026.20260303.78225+ds-3 Downloading dependency 320 of 510: libxext6:amd64=2:1.3.4-1+b4 Downloading dependency 321 of 510: libglib2.0-0t64:amd64=2.88.1-2 Downloading dependency 322 of 510: dpkg:amd64=1.23.7 Downloading dependency 323 of 510: libcoordgen3:amd64=3.0.2-4 Downloading dependency 324 of 510: tex-common:amd64=6.20 Downloading dependency 325 of 510: libz3-dev:amd64=4.13.3-1+b2 Downloading dependency 326 of 510: libharfbuzz0b:amd64=12.3.2-2+b2 Downloading dependency 327 of 510: libpng-dev:amd64=1.6.58-1 Downloading dependency 328 of 510: python3-chardet:amd64=5.2.0+dfsg-2 Downloading dependency 329 of 510: postgresql-server-dev-18:amd64=18.3-1+b1 Downloading dependency 330 of 510: python3-idna:amd64=3.11-1 Downloading dependency 331 of 510: python3:amd64=3.13.9-3+b1 Downloading dependency 332 of 510: automake:amd64=1:1.18.1-4 Downloading dependency 333 of 510: libcairo-gobject2:amd64=1.18.4-3+b1 Downloading dependency 334 of 510: libsm6:amd64=2:1.2.6-1+b2 Downloading dependency 335 of 510: libsmartcols1:amd64=2.42-6 Downloading dependency 336 of 510: python3-dateutil:amd64=2.9.0-4 Downloading dependency 337 of 510: libboost-thread-dev:amd64=1.90.0.2 Downloading dependency 338 of 510: ncurses-bin:amd64=6.6+20251231-1+b1 Downloading dependency 339 of 510: libacl1:amd64=2.3.2-3 Downloading dependency 340 of 510: libisl23:amd64=0.27-2 Downloading dependency 341 of 510: libgprofng0:amd64=2.46-3 Downloading dependency 342 of 510: libicu78:amd64=78.3-1 Downloading dependency 343 of 510: libnettle8t64:amd64=3.10.2-1+b1 Downloading dependency 344 of 510: python3-roman-numerals:amd64=4.1.0-1 Downloading dependency 345 of 510: libkrb5-3:amd64=1.22.1-2+b1 Downloading dependency 346 of 510: libclang-cpp21:amd64=1:21.1.8-7+b1 Downloading dependency 347 of 510: python3-alabaster:amd64=1.0.0-1 Downloading dependency 348 of 510: python3-defusedxml:amd64=0.7.1-3 Downloading dependency 349 of 510: libyaml-0-2:amd64=0.2.5-2+b1 Downloading dependency 350 of 510: librav1e0.8:amd64=0.8.1-10 Downloading dependency 351 of 510: libtexlua53-5:amd64=2026.20260303.78225+ds-3 Downloading dependency 352 of 510: fontconfig-config:amd64=2.17.1-5 Downloading dependency 353 of 510: libfontbox-java:amd64=1:1.8.16-5 Downloading dependency 354 of 510: pkgconf-bin:amd64=2.5.1-4 Downloading dependency 355 of 510: liblapack3:amd64=3.12.1-7+b2 Downloading dependency 356 of 510: libelf1t64:amd64=0.195-1 Downloading dependency 357 of 510: g++-15:amd64=15.2.0-17 Downloading dependency 358 of 510: cpp:amd64=4:15.2.0-5+b1 Downloading dependency 359 of 510: liblcms2-2:amd64=2.19.1-1 Downloading dependency 360 of 510: libglib2.0-dev:amd64=2.88.1-2 Downloading dependency 361 of 510: libuuid1:amd64=2.42-6 Downloading dependency 362 of 510: python3-pandas:amd64=2.3.3+dfsg-3 Downloading dependency 363 of 510: libatomic1:amd64=16-20260425-1 Downloading dependency 364 of 510: libraqm0:amd64=0.10.5-1 Downloading dependency 365 of 510: libaudit-common:amd64=1:4.1.2-1 Downloading dependency 366 of 510: libmaeparser-dev:amd64=1.3.3-4+b1 Downloading dependency 367 of 510: libboost-thread1.90.0:amd64=1.90.0-6 Downloading dependency 368 of 510: libgio-2.0-dev:amd64=2.88.1-2 Downloading dependency 369 of 510: libboost-numpy1.90-dev:amd64=1.90.0-6 Downloading dependency 370 of 510: libxi6:amd64=2:1.8.2-2+b1 Downloading dependency 371 of 510: libhwy1t64:amd64=1.3.0-2+b1 Downloading dependency 372 of 510: libgdk-pixbuf2.0-common:amd64=2.44.6+dfsg-2 Downloading dependency 373 of 510: libsm-dev:amd64=2:1.2.6-1+b2 Downloading dependency 374 of 510: libitm1:amd64=16-20260425-1 Downloading dependency 375 of 510: native-architecture:amd64=0.2.6 Downloading dependency 376 of 510: librhash1:amd64=1.4.6-1.1+b1 Downloading dependency 377 of 510: libunistring5:amd64=1.4.2-1Get:1 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.4.2-1 [480 kB] Fetched 480 kB in 0s (47.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphcmoe0kf/libunistring5_1.4.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-mdit-py-plugins all 0.5.0-1 [33.4 kB] Fetched 33.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9d1gt00o/python3-mdit-py-plugins_0.5.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.15.0-1 [67.2 kB] Fetched 67.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnj0ifgzy/libnghttp3-9_1.15.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1+b2 [20.7 kB] Fetched 20.7 kB in 0s (0 B/s) dpkg-name: info: moved 'libxau6_1%3a1.0.11-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp917t4fls/libxau6_1.0.11-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.2-2 [770 kB] Fetched 770 kB in 0s (63.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpymf8ibkj/autopoint_0.23.2-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-babel all 2.17.0-2 [117 kB] Fetched 117 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6xkzeh5i/python3-babel_2.17.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-11 [539 kB] Fetched 539 kB in 0s (46.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprpe8x_lh/libtool_2.5.4-11_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libaudit1 amd64 1:4.1.2-1+b1 [60.2 kB] Fetched 60.2 kB in 0s (0 B/s) dpkg-name: info: moved 'libaudit1_1%3a4.1.2-1+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp20nxvu5u/libaudit1_4.1.2-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmpfr6 amd64 4.2.2-3 [729 kB] Fetched 729 kB in 0s (60.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmhd0joh4/libmpfr6_4.2.2-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbsd0 amd64 0.12.2-2+b2 [132 kB] Fetched 132 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiuu94clb/libbsd0_0.12.2-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-chrono1.90.0 amd64 1.90.0-6 [232 kB] Fetched 232 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgxubeibk/libboost-chrono1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 catch2 all 3.7.1-0.6 [5216 B] Fetched 5216 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9l03asyi/catch2_3.7.1-0.6_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.22 [216 kB] Fetched 216 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp73qdbj1c/po-debconf_1.0.22_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglib2.0-bin amd64 2.88.1-2 [114 kB] Fetched 114 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqr265663/libglib2.0-bin_2.88.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsframe3 amd64 2.46-3 [84.7 kB] Fetched 84.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppr8ln9nx/libsframe3_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5+b2 [337 kB] Fetched 337 kB in 0s (0 B/s) dpkg-name: info: moved 'libmagic-mgc_1%3a5.46-5+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp4srpoxkq/libmagic-mgc_5.46-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ssl-cert all 1.1.3 [16.8 kB] Fetched 16.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1ths9eis/ssl-cert_1.1.3_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 glycin-loaders amd64 2.0.8-1 [2781 kB] Fetched 2781 kB in 0s (138 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppskyhrog/glycin-loaders_2.0.8-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsqlite3-dev amd64 3.46.1-9+b1 [1112 kB] Fetched 1112 kB in 0s (80.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp27n6bt5e/libsqlite3-dev_3.46.1-9+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsepol2 amd64 3.10-1 [307 kB] Fetched 307 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkyl46lwf/libsepol2_3.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 base-passwd amd64 3.6.8 [54.6 kB] Fetched 54.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvvxemv53/base-passwd_3.6.8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfreetype-dev amd64 2.14.3+dfsg-1 [664 kB] Fetched 664 kB in 0s (53.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7taqxbs1/libfreetype-dev_2.14.3+dfsg-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbinutils amd64 2.46-3 [548 kB] Fetched 548 kB in 0s (49.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpakysi_96/libbinutils_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxext-dev amd64 2:1.3.4-1+b4 [105 kB] Fetched 105 kB in 0s (0 B/s) dpkg-name: info: moved 'libxext-dev_2%3a1.3.4-1+b4_amd64.deb' to '/srv/rebuilderd/tmp/tmpoqcgzsb1/libxext-dev_1.3.4-1+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfontconfig1 amd64 2.17.1-5 [132 kB] Fetched 132 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi5g22lny/libfontconfig1_2.17.1-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgraphite2-3 amd64 1.3.14-13 [75.9 kB] Fetched 75.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnf8tykdj/libgraphite2-3_1.3.14-13_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-snowballstemmer all 3.0.1-1 [63.5 kB] Fetched 63.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx0kkgldg/python3-snowballstemmer_3.0.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 rapidjson-dev all 1.1.0+dfsg2-7.6 [98.2 kB] Fetched 98.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy_8mofa2/rapidjson-dev_1.1.0+dfsg2-7.6_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcairo-script-interpreter2 amd64 1.18.4-3+b1 [58.7 kB] Fetched 58.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn8uwnbnr/libcairo-script-interpreter2_1.18.4-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbz2-1.0 amd64 1.0.8-6+b2 [39.9 kB] Fetched 39.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpduuvopl8/libbz2-1.0_1.0.8-6+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.2-3 [918 kB] Fetched 918 kB in 0s (77.3 MB/s) dpkg-name: info: moved 'zlib1g-dev_1%3a1.3.dfsg+really1.3.2-3_amd64.deb' to '/srv/rebuilderd/tmp/tmpx1ub59bv/zlib1g-dev_1.3.dfsg+really1.3.2-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libltdl7 amd64 2.5.4-11 [416 kB] Fetched 416 kB in 0s (40.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpywmhp5it/libltdl7_2.5.4-11_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 gcc-16-base amd64 16-20260425-1 [35.8 kB] Fetched 35.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3elsz1zn/gcc-16-base_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 22 [12.2 kB] Fetched 12.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp_f78qrg/dh-autoreconf_22_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libpaper2 amd64 2.2.5-0.3+b3 [16.7 kB] Fetched 16.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp20dcy9l9/libpaper2_2.2.5-0.3+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-markupsafe amd64 3.0.3-1+b1 [14.3 kB] Fetched 14.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbmdhda9k/python3-markupsafe_3.0.3-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libblkid1 amd64 2.42-6 [172 kB] Fetched 172 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa07zs7k7/libblkid1_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libblas3 amd64 3.12.1-7+b2 [206 kB] Fetched 206 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcmpyznfb/libblas3_3.12.1-7+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libc6-dev amd64 2.42-15 [1994 kB] Fetched 1994 kB in 0s (113 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphxas40om/libc6-dev_2.42-15_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libk5crypto3 amd64 1.22.1-2+b1 [78.9 kB] Fetched 78.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsbmkm99y/libk5crypto3_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pygments all 2.19.2+dfsg-1 [847 kB] Fetched 847 kB in 0s (73.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjhww4uga/python3-pygments_2.19.2+dfsg-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 linux-libc-dev all 7.0.3-1 [1952 kB] Fetched 1952 kB in 0s (116 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpow882z0t/linux-libc-dev_7.0.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-serialization1.90-dev amd64 1.90.0-6 [364 kB] Fetched 364 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdvp0n8sk/libboost-serialization1.90-dev_1.90.0-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libpaper-utils amd64 2.2.5-0.3+b3 [16.5 kB] Fetched 16.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgzlp36io/libpaper-utils_2.2.5-0.3+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-test1.90-dev amd64 1.90.0-6 [533 kB] Fetched 533 kB in 0s (47.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphmt80cxl/libboost-test1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dash amd64 0.5.12-12 [98.5 kB] Fetched 98.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgaq67lm3/dash_0.5.12-12_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libselinux-dev amd64 3.10-1 [170 kB] Fetched 170 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw_b4qxzd/libselinux-dev_3.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-python1.90-dev amd64 1.90.0-6 [359 kB] Fetched 359 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuhobmvnh/libboost-python1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-jinja2 all 3.1.6-2 [106 kB] Fetched 106 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp60vqoua7/python3-jinja2_3.1.6-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 texlive-pictures all 2026.20260328-4 [23.7 MB] Fetched 23.7 MB in 0s (83.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpicm8t2zg/texlive-pictures_2026.20260328-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 patch amd64 2.8-2 [134 kB] Fetched 134 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcb0azkbo/patch_2.8-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libclang1-21 amd64 1:21.1.8-7+b1 [7704 kB] Fetched 7704 kB in 0s (173 MB/s) dpkg-name: info: moved 'libclang1-21_1%3a21.1.8-7+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp3w2upm3v/libclang1-21_21.1.8-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcairo2 amd64 1.18.4-3+b1 [543 kB] Fetched 543 kB in 0s (53.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvbn6yf6e/libcairo2_1.18.4-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-date-time1.90-dev amd64 1.90.0-6 [231 kB] Fetched 231 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpeu5mjkkl/libboost-date-time1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3-dev amd64 3.13.9-3+b1 [8588 B] Fetched 8588 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmfmztgcn/libpython3-dev_3.13.9-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjsoncpp26 amd64 1.9.7-2 [86.5 kB] Fetched 86.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz89ncyxf/libjsoncpp26_1.9.7-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsqlite3-0 amd64 3.46.1-9+b1 [918 kB] Fetched 918 kB in 0s (65.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgx2vlhr9/libsqlite3-0_3.46.1-9+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libjs-sphinxdoc all 9.1.0-2 [25.2 kB] Fetched 25.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp36m1sh9d/libjs-sphinxdoc_9.1.0-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libexpat1-dev amd64 2.8.0-1 [171 kB] Fetched 171 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmosk1tyu/libexpat1-dev_2.8.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libptexenc1 amd64 2026.20260303.78225+ds-3 [51.7 kB] Fetched 51.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzuasdty1/libptexenc1_2026.20260303.78225+ds-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libctf-nobfd0 amd64 2.46-3 [160 kB] Fetched 160 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7zpazibn/libctf-nobfd0_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpcre2-32-0 amd64 10.46-1+b2 [267 kB] Fetched 267 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprrpi8osw/libpcre2-32-0_10.46-1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 imagemagick amd64 8:7.1.2.21+dfsg1-1 [24.3 kB] Fetched 24.3 kB in 0s (0 B/s) dpkg-name: info: moved 'imagemagick_8%3a7.1.2.21+dfsg1-1_amd64.deb' to '/srv/rebuilderd/tmp/tmph8s9t810/imagemagick_7.1.2.21+dfsg1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-exception1.90-dev amd64 1.90.0-6 [222 kB] Fetched 222 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3gi0u9ga/libboost-exception1.90-dev_1.90.0-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libjxl0.11 amd64 0.11.2-1 [1255 kB] Fetched 1255 kB in 0s (91.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt53lw9k8/libjxl0.11_0.11.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.13-1 [346 kB] Fetched 346 kB in 0s (0 B/s) dpkg-name: info: moved 'libx11-data_2%3a1.8.13-1_all.deb' to '/srv/rebuilderd/tmp/tmpshmwv5lz/libx11-data_1.8.13-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3.13-dev amd64 3.13.12-1 [504 kB] Fetched 504 kB in 0s (50.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp0z00vmp/python3.13-dev_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgirepository-2.0-0 amd64 2.88.1-2 [126 kB] Fetched 126 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiey3fmqc/libgirepository-2.0-0_2.88.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsemanage2 amd64 3.10-1 [92.4 kB] Fetched 92.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt6q0d3_b/libsemanage2_3.10-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libobjc4 amd64 16-20260425-1 [45.0 kB] Fetched 45.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1ij68v2q/libobjc4_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libzstd1 amd64 1.5.7+dfsg-3+b2 [305 kB] Fetched 305 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa90kaulr/libzstd1_1.5.7+dfsg-3+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpangocairo-1.0-0 amd64 1.57.1-2 [33.8 kB] Fetched 33.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy758a2c8/libpangocairo-1.0-0_1.57.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 pandoc amd64 3.9.0.2-1 [28.8 MB] Fetched 28.8 MB in 0s (77.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9be_7bs7/pandoc_3.9.0.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsynctex2 amd64 2026.20260303.78225+ds-3 [63.1 kB] Fetched 63.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1bx9cxpo/libsynctex2_2026.20260303.78225+ds-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgcc-15-dev amd64 15.2.0-17 [2718 kB] Fetched 2718 kB in 0s (137 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbu7maxgx/libgcc-15-dev_15.2.0-17_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libidn2-0 amd64 2.3.8-4+b2 [109 kB] Fetched 109 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpci9n1wbj/libidn2-0_2.3.8-4+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 postgresql-client-18 amd64 18.3-1+b1 [2108 kB] Fetched 2108 kB in 0s (122 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqu6xoz08/postgresql-client-18_18.3-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.12-1 [1974 kB] Fetched 1974 kB in 0s (121 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjxllpsgp/libpython3.13-stdlib_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libavif16 amd64 1.4.1-1+b1 [147 kB] Fetched 147 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8k2iux5w/libavif16_1.4.1-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 g++-15-x86-64-linux-gnu amd64 15.2.0-17 [13.2 MB] Fetched 13.2 MB in 0s (116 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqo4wlpvw/g++-15-x86-64-linux-gnu_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-mono all 2.37-9 [488 kB] Fetched 488 kB in 0s (45.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2hyc1eiz/fonts-dejavu-mono_2.37-9_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python-babel-localedata all 2.17.0-2 [6052 kB] Fetched 6052 kB in 0s (173 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9z3iey3u/python-babel-localedata_2.17.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfribidi0 amd64 1.0.16-5+b1 [26.2 kB] Fetched 26.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxk3p4yzk/libfribidi0_1.0.16-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 clang-21 amd64 1:21.1.8-7+b1 [138 kB] Fetched 138 kB in 0s (0 B/s) dpkg-name: info: moved 'clang-21_1%3a21.1.8-7+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpfsns_8g0/clang-21_21.1.8-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Fetched 19.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp78w8rcv3/libfile-stripnondeterminism-perl_1.15.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.16-4 [108 kB] Fetched 108 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdzab2jaz/dwz_0.16-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.3-4 [74.8 kB] Fetched 74.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppcr6h8kz/readline-common_8.3-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libde265-0 amd64 1.0.18-1 [187 kB] Fetched 187 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxzjuk68o/libde265-0_1.0.18-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgc1 amd64 1:8.2.12-1 [253 kB] Fetched 253 kB in 0s (0 B/s) dpkg-name: info: moved 'libgc1_1%3a8.2.12-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpusg_ekkh/libgc1_8.2.12-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libc6 amd64 2.42-15 [1794 kB] Fetched 1794 kB in 0s (100 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1jmosnv5/libc6_2.42-15_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libipc-run-perl all 20260402.0-1 [112 kB] Fetched 112 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpacr2x38h/libipc-run-perl_20260402.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgav1-2 amd64 0.20.0-2+b1 [372 kB] Fetched 372 kB in 0s (36.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr4z_3grs/libgav1-2_0.20.0-2+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libkrb5support0 amd64 1.22.1-2+b1 [31.0 kB] Fetched 31.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphze555i6/libkrb5support0_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgdk-pixbuf-2.0-0 amd64 2.44.6+dfsg-2 [96.1 kB] Fetched 96.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8rm46o8m/libgdk-pixbuf-2.0-0_2.44.6+dfsg-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.3-4 [181 kB] Fetched 181 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvqhom9o7/libreadline8t64_8.3-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-6+b2 [9348 B] Fetched 9348 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpedztagoe/libkeyutils1_1.6.3-6+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpam-modules-bin amd64 1.7.0-5+b2 [45.6 kB] Fetched 45.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7rnymw2b/libpam-modules-bin_1.7.0-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pil amd64 12.2.0-1 [558 kB] Fetched 558 kB in 0s (53.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3wpbv31e/python3-pil_12.2.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xz-utils amd64 5.8.3-1 [740 kB] Fetched 740 kB in 0s (66.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfd2_5nze/xz-utils_5.8.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsharpyuv0 amd64 1.5.0-0.1+b2 [115 kB] Fetched 115 kB in 0s (11.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5oktp7pd/libsharpyuv0_1.5.0-0.1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libcurl4t64 amd64 8.20.0-1 [409 kB] Fetched 409 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqeuspkpg/libcurl4t64_8.20.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 g++ amd64 4:15.2.0-5+b1 [1344 B] Fetched 1344 B in 0s (0 B/s) dpkg-name: info: moved 'g++_4%3a15.2.0-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmprhuopxtx/g++_15.2.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.13-1 [829 kB] Fetched 829 kB in 0s (70.8 MB/s) dpkg-name: info: moved 'libx11-6_2%3a1.8.13-1_amd64.deb' to '/srv/rebuilderd/tmp/tmp89zm86mk/libx11-6_1.8.13-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.13.9-3+b1 [25.4 kB] Fetched 25.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptps8j0_o/python3-minimal_3.13.9-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 texlive-latex-extra all 2026.20260328-5 [32.9 MB] Fetched 32.9 MB in 0s (76.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgycj9rvw/texlive-latex-extra_2026.20260328-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpango-1.0-0 amd64 1.57.1-2 [224 kB] Fetched 224 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsfk56l23/libpango-1.0-0_1.57.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 architecture-properties amd64 0.2.6+b2 [2632 B] Fetched 2632 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpisdpk3r8/architecture-properties_0.2.6+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 texlive-fonts-recommended all 2026.20260328-4 [4990 kB] Fetched 4990 kB in 0s (170 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4agmkfp7/texlive-fonts-recommended_2026.20260328-4_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libmagickwand-7.q16-10 amd64 8:7.1.2.21+dfsg1-1 [345 kB] Fetched 345 kB in 0s (0 B/s) dpkg-name: info: moved 'libmagickwand-7.q16-10_8%3a7.1.2.21+dfsg1-1_amd64.deb' to '/srv/rebuilderd/tmp/tmp0u_bgihp/libmagickwand-7.q16-10_7.1.2.21+dfsg1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpam0g amd64 1.7.0-5+b2 [66.3 kB] Fetched 66.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp2c3q50n/libpam0g_1.7.0-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.5-1 [59.9 kB] Fetched 59.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyxwn0x9g/libpsl5t64_0.21.5-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 media-types all 14.0.0 [30.8 kB] Fetched 30.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1cbwnlrg/media-types_14.0.0_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 adduser all 3.155 [212 kB] Fetched 212 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp04p_6ia1/adduser_3.155_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsepol-dev amd64 3.10-1 [377 kB] Fetched 377 kB in 0s (37.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv21uq_g2/libsepol-dev_3.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.51.0-2+b2 [155 kB] Fetched 155 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp97yg37zs/libuv1t64_1.51.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libngtcp2-16 amd64 1.22.1-1 [133 kB] Fetched 133 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvkqgljb8/libngtcp2-16_1.22.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-ossl0 amd64 1.22.1-1 [23.3 kB] Fetched 23.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfapjiiow/libngtcp2-crypto-ossl0_1.22.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.8.7-1 [361 kB] Fetched 361 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcs93m_b9/libarchive13t64_3.8.7-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ucf all 3.0053 [41.9 kB] Fetched 41.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbzo6ov98/ucf_3.0053_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgmp10 amd64 2:6.3.0+dfsg-5+b2 [560 kB] Fetched 560 kB in 0s (50.7 MB/s) dpkg-name: info: moved 'libgmp10_2%3a6.3.0+dfsg-5+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpd2ps_do7/libgmp10_6.3.0+dfsg-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-yaml amd64 6.0.3-1 [186 kB] Fetched 186 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe_s4t75a/python3-yaml_6.0.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libice6 amd64 2:1.1.1-1+b2 [66.8 kB] Fetched 66.8 kB in 0s (0 B/s) dpkg-name: info: moved 'libice6_2%3a1.1.1-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmptaf7rfbx/libice6_1.1.1-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpotrace0 amd64 1.16-2+b3 [25.5 kB] Fetched 25.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6bncx5cw/libpotrace0_1.16-2+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.2-2 [1684 kB] Fetched 1684 kB in 0s (106 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_gb_1dxs/gettext_0.23.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb1-dev amd64 1.17.0-2+b2 [181 kB] Fetched 181 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsbwnsegw/libxcb1-dev_1.17.0-2+b2_amd64.deb' Downloading dependency 378 of 510: python3-mdit-py-plugins:amd64=0.5.0-1 Downloading dependency 379 of 510: libnghttp3-9:amd64=1.15.0-1 Downloading dependency 380 of 510: libxau6:amd64=1:1.0.11-1+b2 Downloading dependency 381 of 510: autopoint:amd64=0.23.2-2 Downloading dependency 382 of 510: python3-babel:amd64=2.17.0-2 Downloading dependency 383 of 510: libtool:amd64=2.5.4-11 Downloading dependency 384 of 510: libaudit1:amd64=1:4.1.2-1+b1 Downloading dependency 385 of 510: libmpfr6:amd64=4.2.2-3 Downloading dependency 386 of 510: libbsd0:amd64=0.12.2-2+b2 Downloading dependency 387 of 510: libboost-chrono1.90.0:amd64=1.90.0-6 Downloading dependency 388 of 510: catch2:amd64=3.7.1-0.6 Downloading dependency 389 of 510: po-debconf:amd64=1.0.22 Downloading dependency 390 of 510: libglib2.0-bin:amd64=2.88.1-2 Downloading dependency 391 of 510: libsframe3:amd64=2.46-3 Downloading dependency 392 of 510: libmagic-mgc:amd64=1:5.46-5+b2 Downloading dependency 393 of 510: ssl-cert:amd64=1.1.3 Downloading dependency 394 of 510: glycin-loaders:amd64=2.0.8-1 Downloading dependency 395 of 510: libsqlite3-dev:amd64=3.46.1-9+b1 Downloading dependency 396 of 510: libsepol2:amd64=3.10-1 Downloading dependency 397 of 510: base-passwd:amd64=3.6.8 Downloading dependency 398 of 510: libfreetype-dev:amd64=2.14.3+dfsg-1 Downloading dependency 399 of 510: libbinutils:amd64=2.46-3 Downloading dependency 400 of 510: libxext-dev:amd64=2:1.3.4-1+b4 Downloading dependency 401 of 510: libfontconfig1:amd64=2.17.1-5 Downloading dependency 402 of 510: libgraphite2-3:amd64=1.3.14-13 Downloading dependency 403 of 510: python3-snowballstemmer:amd64=3.0.1-1 Downloading dependency 404 of 510: rapidjson-dev:amd64=1.1.0+dfsg2-7.6 Downloading dependency 405 of 510: libcairo-script-interpreter2:amd64=1.18.4-3+b1 Downloading dependency 406 of 510: libbz2-1.0:amd64=1.0.8-6+b2 Downloading dependency 407 of 510: zlib1g-dev:amd64=1:1.3.dfsg+really1.3.2-3 Downloading dependency 408 of 510: libltdl7:amd64=2.5.4-11 Downloading dependency 409 of 510: gcc-16-base:amd64=16-20260425-1 Downloading dependency 410 of 510: dh-autoreconf:amd64=22 Downloading dependency 411 of 510: libpaper2:amd64=2.2.5-0.3+b3 Downloading dependency 412 of 510: python3-markupsafe:amd64=3.0.3-1+b1 Downloading dependency 413 of 510: libblkid1:amd64=2.42-6 Downloading dependency 414 of 510: libblas3:amd64=3.12.1-7+b2 Downloading dependency 415 of 510: libc6-dev:amd64=2.42-15 Downloading dependency 416 of 510: libk5crypto3:amd64=1.22.1-2+b1 Downloading dependency 417 of 510: python3-pygments:amd64=2.19.2+dfsg-1 Downloading dependency 418 of 510: linux-libc-dev:amd64=7.0.3-1 Downloading dependency 419 of 510: libboost-serialization1.90-dev:amd64=1.90.0-6 Downloading dependency 420 of 510: libpaper-utils:amd64=2.2.5-0.3+b3 Downloading dependency 421 of 510: libboost-test1.90-dev:amd64=1.90.0-6 Downloading dependency 422 of 510: dash:amd64=0.5.12-12 Downloading dependency 423 of 510: libselinux-dev:amd64=3.10-1 Downloading dependency 424 of 510: libboost-python1.90-dev:amd64=1.90.0-6 Downloading dependency 425 of 510: python3-jinja2:amd64=3.1.6-2 Downloading dependency 426 of 510: texlive-pictures:amd64=2026.20260328-4 Downloading dependency 427 of 510: patch:amd64=2.8-2 Downloading dependency 428 of 510: libclang1-21:amd64=1:21.1.8-7+b1 Downloading dependency 429 of 510: libcairo2:amd64=1.18.4-3+b1 Downloading dependency 430 of 510: libboost-date-time1.90-dev:amd64=1.90.0-6 Downloading dependency 431 of 510: libpython3-dev:amd64=3.13.9-3+b1 Downloading dependency 432 of 510: libjsoncpp26:amd64=1.9.7-2 Downloading dependency 433 of 510: libsqlite3-0:amd64=3.46.1-9+b1 Downloading dependency 434 of 510: libjs-sphinxdoc:amd64=9.1.0-2 Downloading dependency 435 of 510: libexpat1-dev:amd64=2.8.0-1 Downloading dependency 436 of 510: libptexenc1:amd64=2026.20260303.78225+ds-3 Downloading dependency 437 of 510: libctf-nobfd0:amd64=2.46-3 Downloading dependency 438 of 510: libpcre2-32-0:amd64=10.46-1+b2 Downloading dependency 439 of 510: imagemagick:amd64=8:7.1.2.21+dfsg1-1 Downloading dependency 440 of 510: libboost-exception1.90-dev:amd64=1.90.0-6 Downloading dependency 441 of 510: libjxl0.11:amd64=0.11.2-1 Downloading dependency 442 of 510: libx11-data:amd64=2:1.8.13-1 Downloading dependency 443 of 510: python3.13-dev:amd64=3.13.12-1 Downloading dependency 444 of 510: libgirepository-2.0-0:amd64=2.88.1-2 Downloading dependency 445 of 510: libsemanage2:amd64=3.10-1 Downloading dependency 446 of 510: libobjc4:amd64=16-20260425-1 Downloading dependency 447 of 510: libzstd1:amd64=1.5.7+dfsg-3+b2 Downloading dependency 448 of 510: libpangocairo-1.0-0:amd64=1.57.1-2 Downloading dependency 449 of 510: pandoc:amd64=3.9.0.2-1 Downloading dependency 450 of 510: libsynctex2:amd64=2026.20260303.78225+ds-3 Downloading dependency 451 of 510: libgcc-15-dev:amd64=15.2.0-17 Downloading dependency 452 of 510: libidn2-0:amd64=2.3.8-4+b2 Downloading dependency 453 of 510: postgresql-client-18:amd64=18.3-1+b1 Downloading dependency 454 of 510: libpython3.13-stdlib:amd64=3.13.12-1 Downloading dependency 455 of 510: libavif16:amd64=1.4.1-1+b1 Downloading dependency 456 of 510: g++-15-x86-64-linux-gnu:amd64=15.2.0-17 Downloading dependency 457 of 510: fonts-dejavu-mono:amd64=2.37-9 Downloading dependency 458 of 510: python-babel-localedata:amd64=2.17.0-2 Downloading dependency 459 of 510: libfribidi0:amd64=1.0.16-5+b1 Downloading dependency 460 of 510: clang-21:amd64=1:21.1.8-7+b1 Downloading dependency 461 of 510: libfile-stripnondeterminism-perl:amd64=1.15.0-1 Downloading dependency 462 of 510: dwz:amd64=0.16-4 Downloading dependency 463 of 510: readline-common:amd64=8.3-4 Downloading dependency 464 of 510: libde265-0:amd64=1.0.18-1 Downloading dependency 465 of 510: libgc1:amd64=1:8.2.12-1 Downloading dependency 466 of 510: libc6:amd64=2.42-15 Downloading dependency 467 of 510: libipc-run-perl:amd64=20260402.0-1 Downloading dependency 468 of 510: libgav1-2:amd64=0.20.0-2+b1 Downloading dependency 469 of 510: libkrb5support0:amd64=1.22.1-2+b1 Downloading dependency 470 of 510: libgdk-pixbuf-2.0-0:amd64=2.44.6+dfsg-2 Downloading dependency 471 of 510: libreadline8t64:amd64=8.3-4 Downloading dependency 472 of 510: libkeyutils1:amd64=1.6.3-6+b2 Downloading dependency 473 of 510: libpam-modules-bin:amd64=1.7.0-5+b2 Downloading dependency 474 of 510: python3-pil:amd64=12.2.0-1 Downloading dependency 475 of 510: xz-utils:amd64=5.8.3-1 Downloading dependency 476 of 510: libsharpyuv0:amd64=1.5.0-0.1+b2 Downloading dependency 477 of 510: libcurl4t64:amd64=8.20.0-1 Downloading dependency 478 of 510: g++:amd64=4:15.2.0-5+b1 Downloading dependency 479 of 510: libx11-6:amd64=2:1.8.13-1 Downloading dependency 480 of 510: python3-minimal:amd64=3.13.9-3+b1 Downloading dependency 481 of 510: texlive-latex-extra:amd64=2026.20260328-5 Downloading dependency 482 of 510: libpango-1.0-0:amd64=1.57.1-2 Downloading dependency 483 of 510: architecture-properties:amd64=0.2.6+b2 Downloading dependency 484 of 510: texlive-fonts-recommended:amd64=2026.20260328-4 Downloading dependency 485 of 510: libmagickwand-7.q16-10:amd64=8:7.1.2.21+dfsg1-1 Downloading dependency 486 of 510: libpam0g:amd64=1.7.0-5+b2 Downloading dependency 487 of 510: libpsl5t64:amd64=0.21.5-1 Downloading dependency 488 of 510: media-types:amd64=14.0.0 Downloading dependency 489 of 510: adduser:amd64=3.155 Downloading dependency 490 of 510: libsepol-dev:amd64=3.10-1 Downloading dependency 491 of 510: libuv1t64:amd64=1.51.0-2+b2 Downloading dependency 492 of 510: libngtcp2-16:amd64=1.22.1-1 Downloading dependency 493 of 510: libngtcp2-crypto-ossl0:amd64=1.22.1-1 Downloading dependency 494 of 510: libarchive13t64:amd64=3.8.7-1 Downloading dependency 495 of 510: ucf:amd64=3.0053 Downloading dependency 496 of 510: libgmp10:amd64=2:6.3.0+dfsg-5+b2 Downloading dependency 497 of 510: python3-yaml:amd64=6.0.3-1 Downloading dependency 498 of 510: libice6:amd64=2:1.1.1-1+b2 Downloading dependency 499 of 510: libpotrace0:amd64=1.16-2+b3 Downloading dependency 500 of 510: gettext:amd64=0.23.2-2 Downloading dependency 501 of 510: libxcb1-dev:amd64=1.17.0-2+b2 Downloading dependency 502 of 510: libz3-4:amd64=4.13.3-1+b2Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libz3-4 amd64 4.13.3-1+b2 [8644 kB] Fetched 8644 kB in 0s (178 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkfa71v3k/libz3-4_4.13.3-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libperl5.40 amd64 5.40.1-7+b1 [4319 kB] Fetched 4319 kB in 0s (163 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9y0mk2jk/libperl5.40_5.40.1-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libssl3t64 amd64 3.6.2-1 [2482 kB] Fetched 2482 kB in 0s (121 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp541o3z3u/libssl3t64_3.6.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20251016-1+b1 [93.3 kB] Fetched 93.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmvc5fqxi/libedit2_3.1-20251016-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-iostreams-dev amd64 1.90.0.2 [2844 B] Fetched 2844 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwus22rko/libboost-iostreams-dev_1.90.0.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5+b2 [42.6 kB] Fetched 42.6 kB in 0s (0 B/s) dpkg-name: info: moved 'file_1%3a5.46-5+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp936p4e_d/file_5.46-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-sqlalchemy all 2.0.45+ds1-1 [1232 kB] Fetched 1232 kB in 0s (89.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpetwc7c3y/python3-sqlalchemy_2.0.45+ds1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglycin-2-0 amd64 2.0.8-1 [1423 kB] Fetched 1423 kB in 0s (98.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwxa6s52h/libglycin-2-0_2.0.8-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cpp-x86-64-linux-gnu amd64 4:15.2.0-5+b1 [4644 B] Fetched 4644 B in 0s (0 B/s) dpkg-name: info: moved 'cpp-x86-64-linux-gnu_4%3a15.2.0-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp1d_4e4zu/cpp-x86-64-linux-gnu_15.2.0-5+b1_amd64.deb' dpkg-buildpackage: info: source package debootsnap-dummy dpkg-buildpackage: info: source version 1.0 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Equivs Dummy Package Generator dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/debootsnap-dummy/ dh_install dh_installdocs dh_installchangelogs dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'debootsnap-dummy' in '../debootsnap-dummy_1.0_all.deb'. dpkg-genbuildinfo --build=binary -O../debootsnap-dummy_1.0_amd64.buildinfo dpkg-genchanges --build=binary -O../debootsnap-dummy_1.0_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) The package has been created. Attention, the package has been created in the /srv/rebuilderd/tmp/tmpq2s6u_sc/cache directory, not in ".." as indicated by the message above! I: automatically chosen mode: unshare I: chroot architecture amd64 is equal to the host's architecture I: using /srv/rebuilderd/tmp/mmdebstrap.6v77x1w7lW as tempdir I: running --setup-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/setup00.sh /srv/rebuilderd/tmp/mmdebstrap.6v77x1w7lW 127.0.0.1 - - [14/May/2026 09:00:43] code 404, message File not found 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:45629 ./ InRelease 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./Release HTTP/1.1" 200 - Get:2 http://localhost:45629 ./ Release [462 B] 127.0.0.1 - - [14/May/2026 09:00:43] code 404, message File not found 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:45629 ./ Release.gpg 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./Packages HTTP/1.1" 200 - Get:4 http://localhost:45629 ./ Packages [780 kB] Fetched 780 kB in 0s (40.7 MB/s) Reading package lists... usr-is-merged found but not real -- not running merged-usr setup hook I: skipping apt-get update because it was already run I: downloading packages with apt... 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./gcc-16-base_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libc-gconv-modules-extra_2.42-15_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libc6_2.42-15_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libgcc-s1_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./mawk_1.3.4.20260302-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./base-files_14_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libtinfo6_6.6%2b20251231-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./debianutils_5.23.2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./bash_5.3-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libacl1_2.3.2-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libattr1_2.5.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libgmp10_6.3.0%2bdfsg-5%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libpcre2-8-0_10.46-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libselinux1_3.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libzstd1_1.5.7%2bdfsg-3%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./zlib1g_1.3.dfsg%2breally1.3.2-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libssl3t64_3.6.2-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./openssl-provider-legacy_3.6.2-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libsystemd0_260.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./coreutils_9.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./dash_0.5.12-12_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./diffutils_3.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libbz2-1.0_1.0.8-6%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./liblzma5_5.8.3-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libmd0_1.1.0-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./tar_1.35%2bdfsg-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./dpkg_1.23.7_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./findutils_4.10.0-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./grep_3.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./gzip_1.13-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./hostname_3.25_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./ncurses-bin_6.6%2b20251231-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libcrypt1_4.5.1-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./perl-base_5.40.1-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./sed_4.9-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libaudit-common_4.1.2-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libcap-ng0_0.9.3-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libaudit1_4.1.2-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libdb5.3t64_5.3.28%2bdfsg2-11%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./debconf_1.5.92_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libpam0g_1.7.0-5%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libpam-modules-bin_1.7.0-5%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libpam-modules_1.7.0-5%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libpam-runtime_1.7.0-5_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libblkid1_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libmount1_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libsmartcols1_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libudev1_260.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libuuid1_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./util-linux_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libdebconfclient0_0.282%2bb3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./base-passwd_3.6.8_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./init-system-helpers_1.69_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./libc-bin_2.42-15_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./ncurses-base_6.6%2b20251231-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:43] "GET /./sysvinit-utils_3.18-1_amd64.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.6v77x1w7lW 127.0.0.1 - - [14/May/2026 09:00:45] code 404, message File not found 127.0.0.1 - - [14/May/2026 09:00:45] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:45629 ./ InRelease 127.0.0.1 - - [14/May/2026 09:00:45] "GET /./Release HTTP/1.1" 304 - Hit:2 http://localhost:45629 ./ Release 127.0.0.1 - - [14/May/2026 09:00:45] code 404, message File not found 127.0.0.1 - - [14/May/2026 09:00:45] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:45629 ./ Release.gpg Reading package lists... usr-is-merged found but not real -- not running merged-usr extract hook I: installing essential packages... I: running --essential-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/essential00.sh /srv/rebuilderd/tmp/mmdebstrap.6v77x1w7lW usr-is-merged was not installed in a previous hook -- not running merged-usr essential hook I: installing remaining packages inside the chroot... 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./m4_1.4.21-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./flex_2.6.4-8.2%2bb5_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libexpat1_2.8.0-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libgomp1_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libfftw3-double3_3.3.10-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libbrotli1_1.2.0-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libpng16-16t64_1.6.58-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libfreetype6_2.14.3%2bdfsg-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./fonts-dejavu-mono_2.37-9_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./fonts-dejavu-core_2.37-9_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./fontconfig-config_2.17.1-5_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libfontconfig1_2.17.1-5_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libsharpyuv0_1.5.0-0.1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libstdc%2b%2b6_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libde265-0_1.0.18-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libheif-plugin-libde265_1.21.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libdav1d7_1.5.3-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libheif-plugin-dav1d_1.21.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libheif1_1.21.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libjbig0_2.1-6.1%2bb3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libjpeg62-turbo_3.1.3-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./liblcms2-2_2.19.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libatomic1_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libffi8_3.5.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libglib2.0-0t64_2.88.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./liblqr-1-0_0.4.2-2.2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libltdl7_2.5.4-11_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libopenjp2-7_2.5.4-1.1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libraw23t64_0.21.5b-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libdeflate0_1.23-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./liblerc4_4.1.0%2bds-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libwebp7_1.5.0-0.1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libtiff6_4.7.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libwebpdemux2_1.5.0-0.1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libwebpmux3_1.5.0-0.1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libxau6_1.0.11-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libxdmcp6_1.1.5-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libxcb1_1.17.0-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libx11-data_1.8.13-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libx11-6_1.8.13-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libxext6_1.3.4-1%2bb4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libxml2-16_2.15.2%2bdfsg-0.1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./imagemagick-7-common_7.1.2.21%2bdfsg1-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libmagickcore-7.q16-10_7.1.2.21%2bdfsg1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libmagickwand-7.q16-10_7.1.2.21%2bdfsg1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libpython3.13-minimal_3.13.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./python3.13-minimal_3.13.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./python3-minimal_3.13.9-3%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./media-types_14.0.0_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./netbase_6.5_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./tzdata_2026b-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libncursesw6_6.6%2b20251231-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./readline-common_8.3-4_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libreadline8t64_8.3-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libsqlite3-0_3.46.1-9%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libpython3.13-stdlib_3.13.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./python3.13_3.13.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libpython3-stdlib_3.13.9-3%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./python3_3.13.9-3%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./python3-numpy-dev_2.4.4%2bds-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libblas3_3.12.1-7%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libgfortran5_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./liblapack3_3.12.1-7%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./python3-numpy_2.4.4%2bds-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./login.defs_4.19.3-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libbsd0_0.12.2-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libsemanage-common_3.10-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libsepol2_3.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libsemanage2_3.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./passwd_4.19.3-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./sensible-utils_0.0.26_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./adduser_3.155_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libuchardet0_0.0.8-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./groff-base_1.24.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./bsdextrautils_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libgdbm6t64_1.26-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libpipeline1_1.5.8-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libseccomp2_2.6.0-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./man-db_2.13.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libproc2-0_4.0.4-9%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./procps_4.0.4-9%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./bzip2_1.0.8-6%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./openssl_3.6.2-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./ca-certificates_20260223_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:50] "GET /./libmagic-mgc_5.46-5%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libmagic1t64_5.46-5%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./file_5.46-5%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./gettext-base_0.23.2-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./perl-modules-5.40_5.40.1-7_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libgdbm-compat4t64_1.26-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libperl5.40_5.40.1-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./perl_5.40.1-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libtext-charwidth-perl_0.04-12_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libtext-wrapi18n-perl_0.06-11_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./ucf_3.0053_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./xz-utils_5.8.3-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./architecture-properties_0.2.6%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./autoconf_2.72-6_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./autotools-dev_20240727.1%2bnmu1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./automake_1.18.1-4_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./autopoint_0.23.2-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libsframe3_2.46-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./binutils-common_2.46-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libbinutils_2.46-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libgprofng0_2.46-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libctf-nobfd0_2.46-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libctf0_2.46-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libjansson4_2.14-2%2bb4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./binutils-x86-64-linux-gnu_2.46-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./binutils_2.46-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./bison_3.8.2%2bdfsg-1%2bb3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libcap2_2.78-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./bubblewrap_0.11.2-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libc-dev-bin_2.42-15_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./linux-libc-dev_7.0.3-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./rpcsvc-proto_1.4.3-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libc6-dev_2.42-15_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./gcc-15-base_15.2.0-17_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libisl23_0.27-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libmpfr6_4.2.2-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libmpc3_1.3.1-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./cpp-15-x86-64-linux-gnu_15.2.0-17_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./cpp-15_15.2.0-17_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./cpp-x86-64-linux-gnu_15.2.0-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./cpp_15.2.0-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libcc1-0_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libitm1_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libasan8_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./liblsan0_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libtsan2_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libubsan1_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libhwasan0_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libquadmath0_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./libgcc-15-dev_15.2.0-17_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:51] "GET /./gcc-15-x86-64-linux-gnu_15.2.0-17_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./gcc-15_15.2.0-17_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./gcc-x86-64-linux-gnu_15.2.0-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./gcc_15.2.0-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./libstdc%2b%2b-15-dev_15.2.0-17_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./g%2b%2b-15-x86-64-linux-gnu_15.2.0-17_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./g%2b%2b-15_15.2.0-17_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./g%2b%2b-x86-64-linux-gnu_15.2.0-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./g%2b%2b_15.2.0-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./make_4.4.1-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./libdpkg-perl_1.23.7_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./patch_2.8-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./dpkg-dev_1.23.7_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./build-essential_12.12_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./libcatch2-dev_3.7.1-0.6%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./catch2_3.7.1-0.6_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./libedit2_3.1-20251016-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./libz3-4_4.13.3-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./libllvm21_21.1.8-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:52] "GET /./libclang-cpp21_21.1.8-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libgc1_8.2.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libobjc4_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libobjc-15-dev_15.2.0-17_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libclang-common-21-dev_21.1.8-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./llvm-21-linker-tools_21.1.8-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libclang1-21_21.1.8-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./clang-21_21.1.8-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libxxhash0_0.8.3-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./liblz4-1_1.10.0-10_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libnettle8t64_3.10.2-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libarchive13t64_3.8.7-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libnghttp3-9_1.15.0-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libngtcp2-16_1.22.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libkrb5support0_1.22.1-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libcom-err2_1.47.4-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libk5crypto3_1.22.1-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libkeyutils1_1.6.3-6%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libkrb5-3_1.22.1-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libgssapi-krb5-2_1.22.1-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libunistring5_1.4.2-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libidn2-0_2.3.8-4%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libsasl2-modules-db_2.1.28%2bdfsg1-11_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libsasl2-2_2.1.28%2bdfsg1-11_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libldap2_2.6.10%2bdfsg-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libnghttp2-14_1.69.0-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libngtcp2-crypto-ossl0_1.22.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libpsl5t64_0.21.5-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libssh2-1t64_1.11.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libcurl4t64_8.20.0-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libjsoncpp26_1.9.7-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./librhash1_1.4.6-1.1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libuv1t64_1.51.0-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./cmake_4.3.2-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libdebhelper-perl_13.31_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libtool_2.5.4-11_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./dh-autoreconf_22_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libarchive-zip-perl_1.68-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libfile-stripnondeterminism-perl_1.15.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./dh-strip-nondeterminism_1.15.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libelf1t64_0.195-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./dwz_0.16-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./gettext_0.23.2-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./intltool-debian_0.35.0%2b20060710.6_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./po-debconf_1.0.22_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./debhelper_13.31_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./python3-greenlet_3.3.2-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./uuid-dev_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libblkid-dev_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./hicolor-icon-theme_0.18-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libfontenc1_1.1.8-1%2bb3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libxrender1_0.9.12-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./xorg-sgml-doctools_1.12.1-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./x11proto-dev_2025.1-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libxau-dev_1.0.11-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libxdmcp-dev_1.1.5-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./xtrans-dev_1.6.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libxcb1-dev_1.17.0-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libx11-dev_1.8.13-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libxrender-dev_0.9.12-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libpixman-1-0_0.46.4-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libjson-perl_4.10000-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libsysprof-capture-4-dev_50.0-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./python3-imagesize_2.0.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libffi-dev_3.5.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./llvm-21-runtime_21.1.8-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./libpfm4_4.13.0%2bgit106-g3e4031b-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:53] "GET /./llvm-21_21.1.8-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./libncurses6_6.6%2b20251231-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./libncurses-dev_6.6%2b20251231-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-pygments_2.19.2%2bdfsg-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./libyaml-0-2_0.2.5-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-yaml_6.0.3-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./llvm-21-tools_21.1.8-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./liblzma-dev_5.8.3-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./zlib1g-dev_1.3.dfsg%2breally1.3.2-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./libxml2-dev_2.15.2%2bdfsg-0.1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./libz3-dev_4.13.3-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./llvm-21-dev_21.1.8-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./libinchi1.07_1.07.3%2bdfsg-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./libinchi-dev_1.07.3%2bdfsg-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./sgml-base_1.31%2bnmu1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./xml-core_0.20_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./docutils-common_0.22.4%2bdfsg-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-roman-numerals_4.1.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-docutils_0.22.4%2bdfsg-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-markupsafe_3.0.3-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-jinja2_3.1.6-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-mdurl_0.1.2-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-uc-micro_2.0.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-linkify-it_2.1.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-markdown-it_4.0.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-mdit-py-plugins_0.5.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-defusedxml_0.7.1-3_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./libjs-sphinxdoc_9.1.0-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./sphinx-common_9.1.0-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python3-alabaster_1.0.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:54] "GET /./python-babel-localedata_2.17.0-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-babel_2.17.0-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-packaging_26.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-certifi_2026.4.22%2bds-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-charset-normalizer_3.4.7-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-idna_3.11-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-urllib3_2.6.3-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-chardet_5.2.0%2bdfsg-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-requests_2.32.5%2bdfsg-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-snowballstemmer_3.0.1-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-sphinx_9.1.0-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-myst-parser_4.0.1-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libboost1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libboost-container1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libboost-container1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libpkgconf7_2.5.1-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libboost-date-time1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libboost-serialization1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./x11-common_7.7%2b26_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libice6_1.1.1-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libsm6_1.2.6-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libxt6t64_1.2.1-1.3%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libxmu6_1.1.3-4%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./pandoc-data_3.9.0.2-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libboost-python1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libboost-numpy1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libboost-dev_1.90.0.2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-pytz_2025.2-6_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./xfonts-encodings_1.0.4-2.2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./xfonts-utils_7.7%2b7_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libgraphite2-3_1.3.14-13_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libharfbuzz0b_12.3.2-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libharfbuzz-subset0_12.3.2-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libmpfi0_1.5.4%2bds-5_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libboost-random1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libboost-random1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libxcb-render0_1.17.0-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./postgresql-client-common_290_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libfmt10_10.1.1%2bds1-4%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libspdlog1.15_1.15.3%2bds-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libxapian30_1.4.31-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./doxygen_1.15.0%2bds1-1.1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./python3-commonmark_0.9.1-8_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libkpathsea6_2026.20260303.78225%2bds-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libptexenc1_2026.20260303.78225%2bds-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libsynctex2_2026.20260303.78225%2bds-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libtexlua53-5_2026.20260303.78225%2bds-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./t1utils_1.41-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./tex-common_6.20_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libxcb-shm0_1.17.0-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libcairo2_1.18.4-3%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libicu78_78.3-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libpaper2_2.2.5-0.3%2bb3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libpotrace0_1.16-2%2bb3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libteckit0_2.5.13%2bds-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libxpm4_3.5.19-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libxaw7_1.0.16-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libxi6_1.8.2-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libzzip-0-13t64_0.13.78%2bdfsg.1-0.2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./texlive-binaries_2026.20260303.78225%2bds-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libsepol-dev_3.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libpcre2-16-0_10.46-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libpcre2-32-0_10.46-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libpcre2-posix3_10.46-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:55] "GET /./libpcre2-dev_10.46-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libselinux-dev_3.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libmount-dev_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./xdg-utils_1.2.1-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libio-pty-perl_1.28-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libipc-run-perl_20260402.0-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./postgresql-common-dev_290_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libpq5_18.3-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libssl-dev_3.6.2-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libpq-dev_18.3-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./postgresql-client-18_18.3-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./ssl-cert_1.1.3_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./postgresql-common_290_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./postgresql-server-dev-18_18.3-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./postgresql-server-dev-all_290_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./python3-pluggy_1.6.0-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-numpy1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-numpy-dev_1.90.0.2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libpaper-utils_2.2.5-0.3%2bb3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./texlive-base_2026.20260328-4_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-test1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libglib2.0-data_2.88.1-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-regex1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-regex1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-iostreams1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-iostreams1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-graph1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libcairo-gobject2_1.18.4-3%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libhwy1t64_1.3.0-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libjxl0.11_0.11.2-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./glycin-loaders_2.0.8-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./glycin-thumbnailers_2.0.8-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libgdk-pixbuf2.0-common_2.44.6%2bdfsg-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./shared-mime-info_2.4-5%2bb3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libglycin-2-0_2.0.8-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libgdk-pixbuf-2.0-0_2.44.6%2bdfsg-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./fontconfig_2.17.1-5_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libfribidi0_1.0.16-5%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libthai-data_0.1.30-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libdatrie1_0.2.14-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libthai0_0.1.30-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libpango-1.0-0_1.57.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libpangoft2-1.0-0_1.57.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libpangocairo-1.0-0_1.57.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./librsvg2-2_2.62.1%2bdfsg-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libsvtav1enc4_4.1.0%2bdfsg-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./fonts-lmodern_2.005-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-program-options1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-chrono1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-chrono1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libbrotli-dev_1.2.0-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libbz2-dev_1.0.8-6%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libpython3.13_3.13.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libexpat1-dev_2.8.0-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libpython3.13-dev_3.13.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libcoordgen3_3.0.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libcoordgen-dev_3.0.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libaom3_3.13.1-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-serialization1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-exception1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-test1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-graph1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libpython3-dev_3.13.9-3%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./python3.13-dev_3.13.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./python3-dev_3.13.9-3%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-python1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-python-dev_1.90.0.2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libapache-pom-java_33-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libcommons-parent-java_56-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libcommons-logging-java_1.3.0-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./native-architecture_0.2.6_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libgirepository-2.0-0_2.88.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./girepository-tools_2.88.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libgio-2.0-dev-bin_2.88.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libglib2.0-dev-bin_2.88.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./librsvg2-bin_2.62.1%2bdfsg-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./liblua5.4-0_5.4.8-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libpng-dev_1.6.58-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libfreetype-dev_2.14.3%2bdfsg-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./pkgconf-bin_2.5.1-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./pkgconf_2.5.1-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libfontconfig-dev_2.17.1-5_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libpixman-1-dev_0.46.4-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libice-dev_1.1.1-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libboost-program-options1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./libxcb-shm0-dev_1.17.0-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./texlive-latex-base_2026.20260328-4_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:56] "GET /./python3-typing-extensions_4.15.0-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libboost-atomic1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./texlive-latex-recommended_2026.20260328-4_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libboost-atomic1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libboost-date-time1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libboost-thread1.90.0_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libboost-thread1.90-dev_1.90.0-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libxcb-render0-dev_1.17.0-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libeigen3-dev_3.4.0-5_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libfontbox-java_1.8.16-5_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libpdfbox-java_1.8.16-5_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libboost-program-options-dev_1.90.0.2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libboost-regex-dev_1.90.0.2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libyuv0_0.0.1922.20260106-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./preview-latex-style_13.2-1.1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./python3-iniconfig_2.1.0-2_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./imagemagick-7.q16_7.1.2.21%2bdfsg1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./latexmk_4.88%7eds-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./python3-pytest_9.0.3-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./python3-pandas-lib_2.3.3%2bdfsg-3%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./tex-gyre_20180621-7_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libimagequant0_4.4.1-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./liblzo2-2_2.10-3%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./dh-python_7.20260309_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libmaeparser1_1.3.3-4%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./python3-recommonmark_0.7.1%2bds-8_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libcairo-script-interpreter2_1.18.4-3%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libgio-2.0-dev_2.88.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libglib2.0-bin_2.88.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libglib2.0-dev_2.88.1-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libsm-dev_1.2.6-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libxext-dev_1.3.4-1%2bb4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libcairo2-dev_1.18.4-3%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libnuma1_2.0.19-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libabsl20260107_20260107.0-5_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./python3-dateutil_2.9.0-4_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libboost-thread-dev_1.90.0.2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./librav1e0.8_0.8.1-10_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./python3-pandas_2.3.3%2bdfsg-3_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libraqm0_0.10.5-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libmaeparser-dev_1.3.3-4%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./libsqlite3-dev_3.46.1-9%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./rapidjson-dev_1.1.0%2bdfsg2-7.6_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./texlive-pictures_2026.20260328-4_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./imagemagick_7.1.2.21%2bdfsg1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:57] "GET /./pandoc_3.9.0.2-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:58] "GET /./libgav1-2_0.20.0-2%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:58] "GET /./libavif16_1.4.1-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:58] "GET /./python3-pil_12.2.0-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:58] "GET /./texlive-latex-extra_2026.20260328-5_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:59] "GET /./texlive-fonts-recommended_2026.20260328-4_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:59] "GET /./libboost-iostreams-dev_1.90.0.2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:59] "GET /./python3-sqlalchemy_2.0.45%2bds1-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [14/May/2026 09:00:59] "GET /./debootsnap-dummy_1.0_all.deb HTTP/1.1" 200 - I: running --customize-hook directly: /srv/rebuilderd/tmp/tmpq2s6u_sc/apt_install.sh /srv/rebuilderd/tmp/mmdebstrap.6v77x1w7lW Reading package lists... Building dependency tree... Reading state information... libexpat1 is already the newest version (2.8.0-1). libexpat1 set to manually installed. python3-greenlet is already the newest version (3.3.2-2). python3-greenlet set to manually installed. libblkid-dev is already the newest version (2.42-6). libblkid-dev set to manually installed. binutils-x86-64-linux-gnu is already the newest version (2.46-3). binutils-x86-64-linux-gnu set to manually installed. hicolor-icon-theme is already the newest version (0.18-2). hicolor-icon-theme set to manually installed. libfontenc1 is already the newest version (1:1.1.8-1+b3). libfontenc1 set to manually installed. libxrender-dev is already the newest version (1:0.9.12-1+b2). libxrender-dev set to manually installed. g++-x86-64-linux-gnu is already the newest version (4:15.2.0-5+b1). g++-x86-64-linux-gnu set to manually installed. libpixman-1-0 is already the newest version (0.46.4-1+b2). libpixman-1-0 set to manually installed. libjson-perl is already the newest version (4.10000-1). libjson-perl set to manually installed. libsysprof-capture-4-dev is already the newest version (50.0-3). libsysprof-capture-4-dev set to manually installed. python3-imagesize is already the newest version (2.0.0-1). python3-imagesize set to manually installed. libgomp1 is already the newest version (16-20260425-1). libgomp1 set to manually installed. libxdmcp-dev is already the newest version (1:1.1.5-2+b1). libxdmcp-dev set to manually installed. login.defs is already the newest version (1:4.19.3-2). login.defs set to manually installed. llvm-21-dev is already the newest version (1:21.1.8-7+b1). llvm-21-dev set to manually installed. libjpeg62-turbo is already the newest version (1:3.1.3-4). libjpeg62-turbo set to manually installed. libinchi-dev is already the newest version (1.07.3+dfsg-2). libinchi-dev set to manually installed. libtext-charwidth-perl is already the newest version (0.04-12). libtext-charwidth-perl set to manually installed. python3-myst-parser is already the newest version (4.0.1-1). python3-myst-parser set to manually installed. libpng16-16t64 is already the newest version (1.6.58-1). libpng16-16t64 set to manually installed. libboost-container1.90-dev is already the newest version (1.90.0-6). libboost-container1.90-dev set to manually installed. python3-numpy-dev is already the newest version (1:2.4.4+ds-2). python3-numpy-dev set to manually installed. libpfm4 is already the newest version (4.13.0+git106-g3e4031b-1+b2). libpfm4 set to manually installed. libstdc++-15-dev is already the newest version (15.2.0-17). libstdc++-15-dev set to manually installed. libpkgconf7 is already the newest version (2.5.1-4). libpkgconf7 set to manually installed. procps is already the newest version (2:4.0.4-9+b2). procps set to manually installed. libattr1 is already the newest version (1:2.5.2-4). libmd0 is already the newest version (1.1.0-2+b2). libboost-date-time1.90.0 is already the newest version (1.90.0-6). libboost-date-time1.90.0 set to manually installed. libboost-serialization1.90.0 is already the newest version (1.90.0-6). libboost-serialization1.90.0 set to manually installed. libxmu6 is already the newest version (2:1.1.3-4+b1). libxmu6 set to manually installed. libarchive-zip-perl is already the newest version (1.68-1). libarchive-zip-perl set to manually installed. pandoc-data is already the newest version (3.9.0.2-1). pandoc-data set to manually installed. libstdc++6 is already the newest version (16-20260425-1). libstdc++6 set to manually installed. libboost-numpy1.90.0 is already the newest version (1.90.0-6). libboost-numpy1.90.0 set to manually installed. libopenjp2-7 is already the newest version (2.5.4-1.1). libopenjp2-7 set to manually installed. fonts-dejavu-core is already the newest version (2.37-9). fonts-dejavu-core set to manually installed. libboost-dev is already the newest version (1.90.0.2). libboost-dev set to manually installed. python3-pytz is already the newest version (2025.2-6). python3-pytz set to manually installed. libquadmath0 is already the newest version (16-20260425-1). libquadmath0 set to manually installed. python3-packaging is already the newest version (26.0-1). python3-packaging set to manually installed. xorg-sgml-doctools is already the newest version (1:1.12.1-1). xorg-sgml-doctools set to manually installed. libdpkg-perl is already the newest version (1.23.7). libdpkg-perl set to manually installed. libwebpmux3 is already the newest version (1.5.0-0.1+b2). libwebpmux3 set to manually installed. xfonts-utils is already the newest version (1:7.7+7). xfonts-utils set to manually installed. tar is already the newest version (1.35+dfsg-4). cpp-15-x86-64-linux-gnu is already the newest version (15.2.0-17). cpp-15-x86-64-linux-gnu set to manually installed. libharfbuzz-subset0 is already the newest version (12.3.2-2+b2). libharfbuzz-subset0 set to manually installed. libmpfi0 is already the newest version (1.5.4+ds-5). libmpfi0 set to manually installed. libobjc-15-dev is already the newest version (15.2.0-17). libobjc-15-dev set to manually installed. libboost-random1.90-dev is already the newest version (1.90.0-6). libboost-random1.90-dev set to manually installed. libfreetype6 is already the newest version (2.14.3+dfsg-1). libfreetype6 set to manually installed. debianutils is already the newest version (5.23.2). libxcb-render0 is already the newest version (1.17.0-2+b2). libxcb-render0 set to manually installed. netbase is already the newest version (6.5). netbase set to manually installed. postgresql-client-common is already the newest version (290). postgresql-client-common set to manually installed. bubblewrap is already the newest version (0.11.2-1). bubblewrap set to manually installed. libsystemd0 is already the newest version (260.1-1). libcap-ng0 is already the newest version (0.9.3-1). libgfortran5 is already the newest version (16-20260425-1). libgfortran5 set to manually installed. libcrypt1 is already the newest version (1:4.5.1-1+b1). libraw23t64 is already the newest version (0.21.5b-1+b1). libraw23t64 set to manually installed. doxygen is already the newest version (1.15.0+ds1-1.1). doxygen set to manually installed. gcc is already the newest version (4:15.2.0-5+b1). gcc set to manually installed. ncurses-base is already the newest version (6.6+20251231-1). python3-commonmark is already the newest version (0.9.1-8). python3-commonmark set to manually installed. binutils-common is already the newest version (2.46-3). binutils-common set to manually installed. liblz4-1 is already the newest version (1.10.0-10). liblz4-1 set to manually installed. autotools-dev is already the newest version (20240727.1+nmu1). autotools-dev set to manually installed. openssl-provider-legacy is already the newest version (3.6.2-1). texlive-binaries is already the newest version (2026.20260303.78225+ds-3). texlive-binaries set to manually installed. autoconf is already the newest version (2.72-6). autoconf set to manually installed. libffi-dev is already the newest version (3.5.2-4). libffi-dev set to manually installed. libhwasan0 is already the newest version (16-20260425-1). libhwasan0 set to manually installed. libmount-dev is already the newest version (2.42-6). libmount-dev set to manually installed. libwebp7 is already the newest version (1.5.0-0.1+b2). libwebp7 set to manually installed. python3-docutils is already the newest version (0.22.4+dfsg-1). python3-docutils set to manually installed. cpp-15 is already the newest version (15.2.0-17). cpp-15 set to manually installed. libmagickcore-7.q16-10 is already the newest version (8:7.1.2.21+dfsg1-1). libmagickcore-7.q16-10 set to manually installed. libctf0 is already the newest version (2.46-3). libctf0 set to manually installed. python3-charset-normalizer is already the newest version (3.4.7-1). python3-charset-normalizer set to manually installed. libseccomp2 is already the newest version (2.6.0-2+b1). libseccomp2 set to manually installed. libteckit0 is already the newest version (2.5.13+ds-1+b1). libteckit0 set to manually installed. libxxhash0 is already the newest version (0.8.3-2+b2). libxxhash0 set to manually installed. python3-numpy is already the newest version (1:2.4.4+ds-2). python3-numpy set to manually installed. gcc-15-x86-64-linux-gnu is already the newest version (15.2.0-17). gcc-15-x86-64-linux-gnu set to manually installed. libdebconfclient0 is already the newest version (0.282+b3). xdg-utils is already the newest version (1.2.1-2). xdg-utils set to manually installed. libboost-python1.90.0 is already the newest version (1.90.0-6). libboost-python1.90.0 set to manually installed. llvm-21 is already the newest version (1:21.1.8-7+b1). llvm-21 set to manually installed. postgresql-server-dev-all is already the newest version (290). postgresql-server-dev-all set to manually installed. libcatch2-dev is already the newest version (3.7.1-0.6+b1). libcatch2-dev set to manually installed. llvm-21-tools is already the newest version (1:21.1.8-7+b1). llvm-21-tools set to manually installed. libpq-dev is already the newest version (18.3-1+b1). libpq-dev set to manually installed. libdav1d7 is already the newest version (1.5.3-1+b2). libdav1d7 set to manually installed. mawk is already the newest version (1.3.4.20260302-1). libinchi1.07 is already the newest version (1.07.3+dfsg-2). libinchi1.07 set to manually installed. libbrotli1 is already the newest version (1.2.0-3). libbrotli1 set to manually installed. libdeflate0 is already the newest version (1.23-2+b2). libdeflate0 set to manually installed. libheif-plugin-libde265 is already the newest version (1.21.2-4). libheif-plugin-libde265 set to manually installed. libio-pty-perl is already the newest version (1:1.28-1). libio-pty-perl set to manually installed. libtsan2 is already the newest version (16-20260425-1). libtsan2 set to manually installed. python3-pluggy is already the newest version (1.6.0-2). python3-pluggy set to manually installed. libboost-numpy-dev is already the newest version (1.90.0.2). libboost-numpy-dev set to manually installed. perl-base is already the newest version (5.40.1-7+b1). python3-urllib3 is already the newest version (2.6.3-2). python3-urllib3 set to manually installed. libgdbm-compat4t64 is already the newest version (1.26-1+b2). libgdbm-compat4t64 set to manually installed. libncurses6 is already the newest version (6.6+20251231-1+b1). libncurses6 set to manually installed. libudev1 is already the newest version (260.1-1). texlive-base is already the newest version (2026.20260328-4). texlive-base set to manually installed. llvm-21-runtime is already the newest version (1:21.1.8-7+b1). llvm-21-runtime set to manually installed. bsdextrautils is already the newest version (2.42-6). bsdextrautils set to manually installed. libtiff6 is already the newest version (4.7.1-2). libtiff6 set to manually installed. libcom-err2 is already the newest version (1.47.4-1). libcom-err2 set to manually installed. libboost-test1.90.0 is already the newest version (1.90.0-6). libboost-test1.90.0 set to manually installed. libxdmcp6 is already the newest version (1:1.1.5-2+b1). libxdmcp6 set to manually installed. libglib2.0-data is already the newest version (2.88.1-2). libglib2.0-data set to manually installed. python3-certifi is already the newest version (2026.4.22+ds-1). python3-certifi set to manually installed. libmpc3 is already the newest version (1.3.1-3). libmpc3 set to manually installed. libboost-iostreams1.90-dev is already the newest version (1.90.0-6). libboost-iostreams1.90-dev set to manually installed. libboost-graph1.90.0 is already the newest version (1.90.0-6). libboost-graph1.90.0 set to manually installed. libc-gconv-modules-extra is already the newest version (2.42-15). librsvg2-2 is already the newest version (2.62.1+dfsg-1). librsvg2-2 set to manually installed. libpcre2-dev is already the newest version (10.46-1+b2). libpcre2-dev set to manually installed. libthai0 is already the newest version (0.1.30-1+b1). libthai0 set to manually installed. liblqr-1-0 is already the newest version (0.4.2-2.2+b1). liblqr-1-0 set to manually installed. libpam-modules is already the newest version (1.7.0-5+b2). libx11-dev is already the newest version (2:1.8.13-1). libx11-dev set to manually installed. libsvtav1enc4 is already the newest version (4.1.0+dfsg-1). libsvtav1enc4 set to manually installed. libwebpdemux2 is already the newest version (1.5.0-0.1+b2). libwebpdemux2 set to manually installed. python3-uc-micro is already the newest version (2.0.0-1). python3-uc-micro set to manually installed. libmagic1t64 is already the newest version (1:5.46-5+b2). libmagic1t64 set to manually installed. fonts-lmodern is already the newest version (2.005-1). fonts-lmodern set to manually installed. intltool-debian is already the newest version (0.35.0+20060710.6). intltool-debian set to manually installed. libxcb1 is already the newest version (1.17.0-2+b2). libxcb1 set to manually installed. libboost-program-options1.90.0 is already the newest version (1.90.0-6). libboost-program-options1.90.0 set to manually installed. libboost-chrono1.90-dev is already the newest version (1.90.0-6). libboost-chrono1.90-dev set to manually installed. libboost-regex1.90.0 is already the newest version (1.90.0-6). libboost-regex1.90.0 set to manually installed. libbrotli-dev is already the newest version (1.2.0-3). libbrotli-dev set to manually installed. libbz2-dev is already the newest version (1.0.8-6+b2). libbz2-dev set to manually installed. libpython3.13-dev is already the newest version (3.13.12-1). libpython3.13-dev set to manually installed. init-system-helpers is already the newest version (1.69). zlib1g is already the newest version (1:1.3.dfsg+really1.3.2-3). libcap2 is already the newest version (1:2.78-1). libcap2 set to manually installed. x11proto-dev is already the newest version (2025.1-1). x11proto-dev set to manually installed. libpcre2-posix3 is already the newest version (10.46-1+b2). libpcre2-posix3 set to manually installed. shared-mime-info is already the newest version (2.4-5+b3). shared-mime-info set to manually installed. libzzip-0-13t64 is already the newest version (0.13.78+dfsg.1-0.2+b1). libzzip-0-13t64 set to manually installed. libcoordgen-dev is already the newest version (3.0.2-4). libcoordgen-dev set to manually installed. libxml2-dev is already the newest version (2.15.2+dfsg-0.1). libxml2-dev set to manually installed. cmake is already the newest version (4.3.2-1). cmake set to manually installed. binutils is already the newest version (2.46-3). binutils set to manually installed. sed is already the newest version (4.9-3). libpcre2-8-0 is already the newest version (10.46-1+b2). perl-modules-5.40 is already the newest version (5.40.1-7). perl-modules-5.40 set to manually installed. ca-certificates is already the newest version (20260223). ca-certificates set to manually installed. gcc-15 is already the newest version (15.2.0-17). gcc-15 set to manually installed. libaom3 is already the newest version (3.13.1-2+b1). libaom3 set to manually installed. libboost-python-dev is already the newest version (1.90.0.2). libboost-python-dev set to manually installed. libcommons-logging-java is already the newest version (1.3.0-2). libcommons-logging-java set to manually installed. libglib2.0-dev-bin is already the newest version (2.88.1-2). libglib2.0-dev-bin set to manually installed. librsvg2-bin is already the newest version (2.62.1+dfsg-1). librsvg2-bin set to manually installed. libsasl2-modules-db is already the newest version (2.1.28+dfsg1-11). libsasl2-modules-db set to manually installed. liblua5.4-0 is already the newest version (5.4.8-1+b2). liblua5.4-0 set to manually installed. libxml2-16 is already the newest version (2.15.2+dfsg-0.1). libxml2-16 set to manually installed. libgcc-s1 is already the newest version (16-20260425-1). tzdata is already the newest version (2026b-1). tzdata set to manually installed. libldap2 is already the newest version (2.6.10+dfsg-1+b2). libldap2 set to manually installed. libfontconfig-dev is already the newest version (2.17.1-5). libfontconfig-dev set to manually installed. libpixman-1-dev is already the newest version (0.46.4-1+b2). libpixman-1-dev set to manually installed. x11-common is already the newest version (1:7.7+26). x11-common set to manually installed. libffi8 is already the newest version (3.5.2-4). libffi8 set to manually installed. libxcb-shm0 is already the newest version (1.17.0-2+b2). libxcb-shm0 set to manually installed. libice-dev is already the newest version (2:1.1.1-1+b2). libice-dev set to manually installed. glycin-thumbnailers is already the newest version (2.0.8-1). glycin-thumbnailers set to manually installed. libboost-program-options1.90-dev is already the newest version (1.90.0-6). libboost-program-options1.90-dev set to manually installed. libssh2-1t64 is already the newest version (1.11.1-2). libssh2-1t64 set to manually installed. libxcb-shm0-dev is already the newest version (1.17.0-2+b2). libxcb-shm0-dev set to manually installed. libpcre2-16-0 is already the newest version (10.46-1+b2). libpcre2-16-0 set to manually installed. make is already the newest version (4.4.1-3). make set to manually installed. libjbig0 is already the newest version (2.1-6.1+b3). libjbig0 set to manually installed. libfmt10 is already the newest version (10.1.1+ds1-4+b2). libfmt10 set to manually installed. xml-core is already the newest version (0.20). xml-core set to manually installed. texlive-latex-base is already the newest version (2026.20260328-4). texlive-latex-base set to manually installed. sensible-utils is already the newest version (0.0.26). sensible-utils set to manually installed. t1utils is already the newest version (1.41-4). t1utils set to manually installed. bash is already the newest version (5.3-3). llvm-21-linker-tools is already the newest version (1:21.1.8-7+b1). llvm-21-linker-tools set to manually installed. python3-sphinx is already the newest version (9.1.0-2). python3-sphinx set to manually installed. libtext-wrapi18n-perl is already the newest version (0.06-11). libtext-wrapi18n-perl set to manually installed. coreutils is already the newest version (9.10-1). libdebhelper-perl is already the newest version (13.31). libdebhelper-perl set to manually installed. libxrender1 is already the newest version (1:0.9.12-1+b2). libxrender1 set to manually installed. pkgconf is already the newest version (2.5.1-4). pkgconf set to manually installed. python3-typing-extensions is already the newest version (4.15.0-2). python3-typing-extensions set to manually installed. libboost-atomic1.90.0 is already the newest version (1.90.0-6). libboost-atomic1.90.0 set to manually installed. gcc-15-base is already the newest version (15.2.0-17). gcc-15-base set to manually installed. python3.13 is already the newest version (3.13.12-1). python3.13 set to manually installed. libspdlog1.15 is already the newest version (1:1.15.3+ds-1+b2). libspdlog1.15 set to manually installed. gzip is already the newest version (1.13-1). texlive-latex-recommended is already the newest version (2026.20260328-4). texlive-latex-recommended set to manually installed. dh-strip-nondeterminism is already the newest version (1.15.0-1). dh-strip-nondeterminism set to manually installed. libboost-thread1.90-dev is already the newest version (1.90.0-6). libboost-thread1.90-dev set to manually installed. libtinfo6 is already the newest version (6.6+20251231-1+b1). libproc2-0 is already the newest version (2:4.0.4-9+b2). libproc2-0 set to manually installed. fontconfig is already the newest version (2.17.1-5). fontconfig set to manually installed. libthai-data is already the newest version (0.1.30-1). libthai-data set to manually installed. build-essential is already the newest version (12.12). build-essential set to manually installed. openssl is already the newest version (3.6.2-1). openssl set to manually installed. sgml-base is already the newest version (1.31+nmu1). sgml-base set to manually installed. libxcb-render0-dev is already the newest version (1.17.0-2+b2). libxcb-render0-dev set to manually installed. libboost-random1.90.0 is already the newest version (1.90.0-6). libboost-random1.90.0 set to manually installed. libxau-dev is already the newest version (1:1.0.11-1+b2). libxau-dev set to manually installed. libpipeline1 is already the newest version (1.5.8-3). libpipeline1 set to manually installed. m4 is already the newest version (1.4.21-1). m4 set to manually installed. python3-dev is already the newest version (3.13.9-3+b1). python3-dev set to manually installed. rpcsvc-proto is already the newest version (1.4.3-1). rpcsvc-proto set to manually installed. debconf is already the newest version (1.5.92). python3.13-minimal is already the newest version (3.13.12-1). python3.13-minimal set to manually installed. libeigen3-dev is already the newest version (3.4.0-5). libeigen3-dev set to manually installed. libpdfbox-java is already the newest version (1:1.8.16-5). libpdfbox-java set to manually installed. libxaw7 is already the newest version (2:1.0.16-1+b2). libxaw7 set to manually installed. sysvinit-utils is already the newest version (3.18-1). imagemagick-7-common is already the newest version (8:7.1.2.21+dfsg1-1). imagemagick-7-common set to manually installed. findutils is already the newest version (4.10.0-4). sphinx-common is already the newest version (9.1.0-2). sphinx-common set to manually installed. libpam-runtime is already the newest version (1.7.0-5). libboost-program-options-dev is already the newest version (1.90.0.2). libboost-program-options-dev set to manually installed. libc-bin is already the newest version (2.42-15). postgresql-common-dev is already the newest version (290). postgresql-common-dev set to manually installed. libpangoft2-1.0-0 is already the newest version (1.57.1-2). libpangoft2-1.0-0 set to manually installed. libpq5 is already the newest version (18.3-1+b1). libpq5 set to manually installed. libgssapi-krb5-2 is already the newest version (1.22.1-2+b1). libgssapi-krb5-2 set to manually installed. bzip2 is already the newest version (1.0.8-6+b2). bzip2 set to manually installed. liblzma5 is already the newest version (5.8.3-1). python3-mdurl is already the newest version (0.1.2-1). python3-mdurl set to manually installed. libdatrie1 is already the newest version (0.2.14-1+b1). libdatrie1 set to manually installed. libboost-iostreams1.90.0 is already the newest version (1.90.0-6). libboost-iostreams1.90.0 set to manually installed. libgio-2.0-dev-bin is already the newest version (2.88.1-2). libgio-2.0-dev-bin set to manually installed. man-db is already the newest version (2.13.1-1). man-db set to manually installed. debhelper is already the newest version (13.31). debhelper set to manually installed. passwd is already the newest version (1:4.19.3-2). passwd set to manually installed. libxpm4 is already the newest version (1:3.5.19-1). libxpm4 set to manually installed. libc-dev-bin is already the newest version (2.42-15). libc-dev-bin set to manually installed. libpython3-stdlib is already the newest version (3.13.9-3+b1). libpython3-stdlib set to manually installed. libgdbm6t64 is already the newest version (1.26-1+b2). libgdbm6t64 set to manually installed. libboost-regex-dev is already the newest version (1.90.0.2). libboost-regex-dev set to manually installed. libssl-dev is already the newest version (3.6.2-1). libssl-dev set to manually installed. hostname is already the newest version (3.25). libncurses-dev is already the newest version (6.6+20251231-1+b1). libncurses-dev set to manually installed. libyuv0 is already the newest version (0.0.1922.20260106-1+b1). libyuv0 set to manually installed. docutils-common is already the newest version (0.22.4+dfsg-1). docutils-common set to manually installed. libsasl2-2 is already the newest version (2.1.28+dfsg1-11). libsasl2-2 set to manually installed. libxt6t64 is already the newest version (1:1.2.1-1.3+b2). libxt6t64 set to manually installed. preview-latex-style is already the newest version (13.2-1.1). preview-latex-style set to manually installed. xfonts-encodings is already the newest version (1:1.0.4-2.2). xfonts-encodings set to manually installed. liblerc4 is already the newest version (4.1.0+ds-1). liblerc4 set to manually installed. python3-iniconfig is already the newest version (2.1.0-2). python3-iniconfig set to manually installed. imagemagick-7.q16 is already the newest version (8:7.1.2.21+dfsg1-1). imagemagick-7.q16 set to manually installed. libmount1 is already the newest version (2.42-6). latexmk is already the newest version (1:4.88~ds-1). latexmk set to manually installed. python3-pytest is already the newest version (9.0.3-1). python3-pytest set to manually installed. libheif-plugin-dav1d is already the newest version (1.21.2-4). libheif-plugin-dav1d set to manually installed. uuid-dev is already the newest version (2.42-6). uuid-dev set to manually installed. libxapian30 is already the newest version (1.4.31-2). libxapian30 set to manually installed. libcommons-parent-java is already the newest version (56-1). libcommons-parent-java set to manually installed. perl is already the newest version (5.40.1-7+b1). perl set to manually installed. python3-requests is already the newest version (2.32.5+dfsg-1). python3-requests set to manually installed. libubsan1 is already the newest version (16-20260425-1). libubsan1 set to manually installed. python3-pandas-lib is already the newest version (2.3.3+dfsg-3+b1). python3-pandas-lib set to manually installed. tex-gyre is already the newest version (20180621-7). tex-gyre set to manually installed. libsemanage-common is already the newest version (3.10-1). libsemanage-common set to manually installed. libapache-pom-java is already the newest version (33-2). libapache-pom-java set to manually installed. libnghttp2-14 is already the newest version (1.69.0-1). libnghttp2-14 set to manually installed. girepository-tools is already the newest version (2.88.1-2). girepository-tools set to manually installed. liblsan0 is already the newest version (16-20260425-1). liblsan0 set to manually installed. libimagequant0 is already the newest version (4.4.1-1+b2). libimagequant0 set to manually installed. flex is already the newest version (2.6.4-8.2+b5). flex set to manually installed. liblzo2-2 is already the newest version (2.10-3+b2). liblzo2-2 set to manually installed. libuchardet0 is already the newest version (0.0.8-2+b2). libuchardet0 set to manually installed. dh-python is already the newest version (7.20260309). dh-python set to manually installed. libmaeparser1 is already the newest version (1.3.3-4+b1). libmaeparser1 set to manually installed. python3-recommonmark is already the newest version (0.7.1+ds-8). python3-recommonmark set to manually installed. python3-markdown-it is already the newest version (4.0.0-1). python3-markdown-it set to manually installed. libboost-regex1.90-dev is already the newest version (1.90.0-6). libboost-regex1.90-dev set to manually installed. libncursesw6 is already the newest version (6.6+20251231-1+b1). libncursesw6 set to manually installed. python3-linkify-it is already the newest version (2.1.0-1). python3-linkify-it set to manually installed. grep is already the newest version (3.12-1). libcc1-0 is already the newest version (16-20260425-1). libcc1-0 set to manually installed. libfftw3-double3 is already the newest version (3.3.10-2+b2). libfftw3-double3 set to manually installed. libclang-common-21-dev is already the newest version (1:21.1.8-7+b1). libclang-common-21-dev set to manually installed. libboost-container1.90.0 is already the newest version (1.90.0-6). libboost-container1.90.0 set to manually installed. gettext-base is already the newest version (0.23.2-2). gettext-base set to manually installed. libllvm21 is already the newest version (1:21.1.8-7+b1). libllvm21 set to manually installed. libcairo2-dev is already the newest version (1.18.4-3+b1). libcairo2-dev set to manually installed. util-linux is already the newest version (2.42-6). libselinux1 is already the newest version (3.10-1). libjansson4 is already the newest version (2.14-2+b4). libjansson4 set to manually installed. libpython3.13-minimal is already the newest version (3.13.12-1). libpython3.13-minimal set to manually installed. libboost-atomic1.90-dev is already the newest version (1.90.0-6). libboost-atomic1.90-dev set to manually installed. libasan8 is already the newest version (16-20260425-1). libasan8 set to manually installed. libboost-graph1.90-dev is already the newest version (1.90.0-6). libboost-graph1.90-dev set to manually installed. libboost1.90-dev is already the newest version (1.90.0-6). libboost1.90-dev set to manually installed. dpkg-dev is already the newest version (1.23.7). dpkg-dev set to manually installed. libdb5.3t64 is already the newest version (5.3.28+dfsg2-11+b1). libnuma1 is already the newest version (2.0.19-1+b2). libnuma1 set to manually installed. base-files is already the newest version (14). postgresql-common is already the newest version (290). postgresql-common set to manually installed. liblzma-dev is already the newest version (5.8.3-1). liblzma-dev set to manually installed. libpython3.13 is already the newest version (3.13.12-1). libpython3.13 set to manually installed. diffutils is already the newest version (1:3.12-1). xtrans-dev is already the newest version (1.6.0-1). xtrans-dev set to manually installed. gcc-x86-64-linux-gnu is already the newest version (4:15.2.0-5+b1). gcc-x86-64-linux-gnu set to manually installed. groff-base is already the newest version (1.24.1-1). groff-base set to manually installed. libheif1 is already the newest version (1.21.2-4). libheif1 set to manually installed. bison is already the newest version (2:3.8.2+dfsg-1+b3). bison set to manually installed. libabsl20260107 is already the newest version (20260107.0-5). libabsl20260107 set to manually installed. libkpathsea6 is already the newest version (2026.20260303.78225+ds-3). libkpathsea6 set to manually installed. libxext6 is already the newest version (2:1.3.4-1+b4). libxext6 set to manually installed. libglib2.0-0t64 is already the newest version (2.88.1-2). libglib2.0-0t64 set to manually installed. dpkg is already the newest version (1.23.7). libcoordgen3 is already the newest version (3.0.2-4). libcoordgen3 set to manually installed. tex-common is already the newest version (6.20). tex-common set to manually installed. libz3-dev is already the newest version (4.13.3-1+b2). libz3-dev set to manually installed. libharfbuzz0b is already the newest version (12.3.2-2+b2). libharfbuzz0b set to manually installed. libpng-dev is already the newest version (1.6.58-1). libpng-dev set to manually installed. python3-chardet is already the newest version (5.2.0+dfsg-2). python3-chardet set to manually installed. postgresql-server-dev-18 is already the newest version (18.3-1+b1). postgresql-server-dev-18 set to manually installed. python3-idna is already the newest version (3.11-1). python3-idna set to manually installed. python3 is already the newest version (3.13.9-3+b1). python3 set to manually installed. automake is already the newest version (1:1.18.1-4). automake set to manually installed. libcairo-gobject2 is already the newest version (1.18.4-3+b1). libcairo-gobject2 set to manually installed. libsm6 is already the newest version (2:1.2.6-1+b2). libsm6 set to manually installed. libsmartcols1 is already the newest version (2.42-6). python3-dateutil is already the newest version (2.9.0-4). python3-dateutil set to manually installed. libboost-thread-dev is already the newest version (1.90.0.2). libboost-thread-dev set to manually installed. ncurses-bin is already the newest version (6.6+20251231-1+b1). libacl1 is already the newest version (2.3.2-3). libisl23 is already the newest version (0.27-2). libisl23 set to manually installed. libgprofng0 is already the newest version (2.46-3). libgprofng0 set to manually installed. libicu78 is already the newest version (78.3-1). libicu78 set to manually installed. libnettle8t64 is already the newest version (3.10.2-1+b1). libnettle8t64 set to manually installed. python3-roman-numerals is already the newest version (4.1.0-1). python3-roman-numerals set to manually installed. libkrb5-3 is already the newest version (1.22.1-2+b1). libkrb5-3 set to manually installed. libclang-cpp21 is already the newest version (1:21.1.8-7+b1). libclang-cpp21 set to manually installed. python3-alabaster is already the newest version (1.0.0-1). python3-alabaster set to manually installed. python3-defusedxml is already the newest version (0.7.1-3). python3-defusedxml set to manually installed. libyaml-0-2 is already the newest version (0.2.5-2+b1). libyaml-0-2 set to manually installed. librav1e0.8 is already the newest version (0.8.1-10). librav1e0.8 set to manually installed. libtexlua53-5 is already the newest version (2026.20260303.78225+ds-3). libtexlua53-5 set to manually installed. fontconfig-config is already the newest version (2.17.1-5). fontconfig-config set to manually installed. libfontbox-java is already the newest version (1:1.8.16-5). libfontbox-java set to manually installed. pkgconf-bin is already the newest version (2.5.1-4). pkgconf-bin set to manually installed. liblapack3 is already the newest version (3.12.1-7+b2). liblapack3 set to manually installed. libelf1t64 is already the newest version (0.195-1). libelf1t64 set to manually installed. g++-15 is already the newest version (15.2.0-17). g++-15 set to manually installed. cpp is already the newest version (4:15.2.0-5+b1). cpp set to manually installed. liblcms2-2 is already the newest version (2.19.1-1). liblcms2-2 set to manually installed. libglib2.0-dev is already the newest version (2.88.1-2). libglib2.0-dev set to manually installed. libuuid1 is already the newest version (2.42-6). python3-pandas is already the newest version (2.3.3+dfsg-3). python3-pandas set to manually installed. libatomic1 is already the newest version (16-20260425-1). libatomic1 set to manually installed. libraqm0 is already the newest version (0.10.5-1). libraqm0 set to manually installed. libaudit-common is already the newest version (1:4.1.2-1). libmaeparser-dev is already the newest version (1.3.3-4+b1). libmaeparser-dev set to manually installed. libboost-thread1.90.0 is already the newest version (1.90.0-6). libboost-thread1.90.0 set to manually installed. libgio-2.0-dev is already the newest version (2.88.1-2). libgio-2.0-dev set to manually installed. libboost-numpy1.90-dev is already the newest version (1.90.0-6). libboost-numpy1.90-dev set to manually installed. libxi6 is already the newest version (2:1.8.2-2+b1). libxi6 set to manually installed. libhwy1t64 is already the newest version (1.3.0-2+b1). libhwy1t64 set to manually installed. libgdk-pixbuf2.0-common is already the newest version (2.44.6+dfsg-2). libgdk-pixbuf2.0-common set to manually installed. libsm-dev is already the newest version (2:1.2.6-1+b2). libsm-dev set to manually installed. libitm1 is already the newest version (16-20260425-1). libitm1 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 (1.4.6-1.1+b1). librhash1 set to manually installed. libunistring5 is already the newest version (1.4.2-1). libunistring5 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. libnghttp3-9 is already the newest version (1.15.0-1). libnghttp3-9 set to manually installed. libxau6 is already the newest version (1:1.0.11-1+b2). libxau6 set to manually installed. autopoint is already the newest version (0.23.2-2). autopoint set to manually installed. python3-babel is already the newest version (2.17.0-2). python3-babel set to manually installed. libtool is already the newest version (2.5.4-11). libtool set to manually installed. libaudit1 is already the newest version (1:4.1.2-1+b1). libmpfr6 is already the newest version (4.2.2-3). libmpfr6 set to manually installed. libbsd0 is already the newest version (0.12.2-2+b2). libbsd0 set to manually installed. libboost-chrono1.90.0 is already the newest version (1.90.0-6). libboost-chrono1.90.0 set to manually installed. catch2 is already the newest version (3.7.1-0.6). catch2 set to manually installed. po-debconf is already the newest version (1.0.22). po-debconf set to manually installed. libglib2.0-bin is already the newest version (2.88.1-2). libglib2.0-bin set to manually installed. libsframe3 is already the newest version (2.46-3). libsframe3 set to manually installed. libmagic-mgc is already the newest version (1:5.46-5+b2). libmagic-mgc set to manually installed. ssl-cert is already the newest version (1.1.3). ssl-cert set to manually installed. glycin-loaders is already the newest version (2.0.8-1). glycin-loaders set to manually installed. libsqlite3-dev is already the newest version (3.46.1-9+b1). libsqlite3-dev set to manually installed. libsepol2 is already the newest version (3.10-1). libsepol2 set to manually installed. base-passwd is already the newest version (3.6.8). libfreetype-dev is already the newest version (2.14.3+dfsg-1). libfreetype-dev set to manually installed. libbinutils is already the newest version (2.46-3). libbinutils set to manually installed. libxext-dev is already the newest version (2:1.3.4-1+b4). libxext-dev set to manually installed. libfontconfig1 is already the newest version (2.17.1-5). libfontconfig1 set to manually installed. libgraphite2-3 is already the newest version (1.3.14-13). libgraphite2-3 set to manually installed. python3-snowballstemmer is already the newest version (3.0.1-1). python3-snowballstemmer set to manually installed. rapidjson-dev is already the newest version (1.1.0+dfsg2-7.6). rapidjson-dev set to manually installed. libcairo-script-interpreter2 is already the newest version (1.18.4-3+b1). libcairo-script-interpreter2 set to manually installed. libbz2-1.0 is already the newest version (1.0.8-6+b2). zlib1g-dev is already the newest version (1:1.3.dfsg+really1.3.2-3). zlib1g-dev set to manually installed. libltdl7 is already the newest version (2.5.4-11). libltdl7 set to manually installed. gcc-16-base is already the newest version (16-20260425-1). dh-autoreconf is already the newest version (22). dh-autoreconf set to manually installed. libpaper2 is already the newest version (2.2.5-0.3+b3). libpaper2 set to manually installed. python3-markupsafe is already the newest version (3.0.3-1+b1). python3-markupsafe set to manually installed. libblkid1 is already the newest version (2.42-6). libblas3 is already the newest version (3.12.1-7+b2). libblas3 set to manually installed. libc6-dev is already the newest version (2.42-15). libc6-dev set to manually installed. libk5crypto3 is already the newest version (1.22.1-2+b1). libk5crypto3 set to manually installed. python3-pygments is already the newest version (2.19.2+dfsg-1). python3-pygments set to manually installed. linux-libc-dev is already the newest version (7.0.3-1). linux-libc-dev set to manually installed. libboost-serialization1.90-dev is already the newest version (1.90.0-6). libboost-serialization1.90-dev set to manually installed. libpaper-utils is already the newest version (2.2.5-0.3+b3). libpaper-utils set to manually installed. libboost-test1.90-dev is already the newest version (1.90.0-6). libboost-test1.90-dev set to manually installed. dash is already the newest version (0.5.12-12). libselinux-dev is already the newest version (3.10-1). libselinux-dev set to manually installed. libboost-python1.90-dev is already the newest version (1.90.0-6). libboost-python1.90-dev set to manually installed. python3-jinja2 is already the newest version (3.1.6-2). python3-jinja2 set to manually installed. texlive-pictures is already the newest version (2026.20260328-4). texlive-pictures set to manually installed. patch is already the newest version (2.8-2). patch set to manually installed. libclang1-21 is already the newest version (1:21.1.8-7+b1). libclang1-21 set to manually installed. libcairo2 is already the newest version (1.18.4-3+b1). libcairo2 set to manually installed. libboost-date-time1.90-dev is already the newest version (1.90.0-6). libboost-date-time1.90-dev set to manually installed. libpython3-dev is already the newest version (3.13.9-3+b1). libpython3-dev set to manually installed. libjsoncpp26 is already the newest version (1.9.7-2). libjsoncpp26 set to manually installed. libsqlite3-0 is already the newest version (3.46.1-9+b1). libsqlite3-0 set to manually installed. libjs-sphinxdoc is already the newest version (9.1.0-2). libjs-sphinxdoc set to manually installed. libexpat1-dev is already the newest version (2.8.0-1). libexpat1-dev set to manually installed. libptexenc1 is already the newest version (2026.20260303.78225+ds-3). libptexenc1 set to manually installed. libctf-nobfd0 is already the newest version (2.46-3). libctf-nobfd0 set to manually installed. libpcre2-32-0 is already the newest version (10.46-1+b2). libpcre2-32-0 set to manually installed. imagemagick is already the newest version (8:7.1.2.21+dfsg1-1). imagemagick set to manually installed. libboost-exception1.90-dev is already the newest version (1.90.0-6). libboost-exception1.90-dev set to manually installed. libjxl0.11 is already the newest version (0.11.2-1). libjxl0.11 set to manually installed. libx11-data is already the newest version (2:1.8.13-1). libx11-data set to manually installed. python3.13-dev is already the newest version (3.13.12-1). python3.13-dev set to manually installed. libgirepository-2.0-0 is already the newest version (2.88.1-2). libgirepository-2.0-0 set to manually installed. libsemanage2 is already the newest version (3.10-1). libsemanage2 set to manually installed. libobjc4 is already the newest version (16-20260425-1). libobjc4 set to manually installed. libzstd1 is already the newest version (1.5.7+dfsg-3+b2). libpangocairo-1.0-0 is already the newest version (1.57.1-2). libpangocairo-1.0-0 set to manually installed. pandoc is already the newest version (3.9.0.2-1). pandoc set to manually installed. libsynctex2 is already the newest version (2026.20260303.78225+ds-3). libsynctex2 set to manually installed. libgcc-15-dev is already the newest version (15.2.0-17). libgcc-15-dev set to manually installed. libidn2-0 is already the newest version (2.3.8-4+b2). libidn2-0 set to manually installed. postgresql-client-18 is already the newest version (18.3-1+b1). postgresql-client-18 set to manually installed. libpython3.13-stdlib is already the newest version (3.13.12-1). libpython3.13-stdlib set to manually installed. libavif16 is already the newest version (1.4.1-1+b1). libavif16 set to manually installed. g++-15-x86-64-linux-gnu is already the newest version (15.2.0-17). g++-15-x86-64-linux-gnu set to manually installed. fonts-dejavu-mono is already the newest version (2.37-9). fonts-dejavu-mono set to manually installed. python-babel-localedata is already the newest version (2.17.0-2). python-babel-localedata set to manually installed. libfribidi0 is already the newest version (1.0.16-5+b1). libfribidi0 set to manually installed. clang-21 is already the newest version (1:21.1.8-7+b1). clang-21 set to manually installed. libfile-stripnondeterminism-perl is already the newest version (1.15.0-1). libfile-stripnondeterminism-perl set to manually installed. dwz is already the newest version (0.16-4). dwz set to manually installed. readline-common is already the newest version (8.3-4). readline-common set to manually installed. libde265-0 is already the newest version (1.0.18-1). libde265-0 set to manually installed. libgc1 is already the newest version (1:8.2.12-1). libgc1 set to manually installed. libc6 is already the newest version (2.42-15). libipc-run-perl is already the newest version (20260402.0-1). libipc-run-perl set to manually installed. libgav1-2 is already the newest version (0.20.0-2+b1). libgav1-2 set to manually installed. libkrb5support0 is already the newest version (1.22.1-2+b1). libkrb5support0 set to manually installed. libgdk-pixbuf-2.0-0 is already the newest version (2.44.6+dfsg-2). libgdk-pixbuf-2.0-0 set to manually installed. libreadline8t64 is already the newest version (8.3-4). libreadline8t64 set to manually installed. libkeyutils1 is already the newest version (1.6.3-6+b2). libkeyutils1 set to manually installed. libpam-modules-bin is already the newest version (1.7.0-5+b2). python3-pil is already the newest version (12.2.0-1). python3-pil set to manually installed. xz-utils is already the newest version (5.8.3-1). xz-utils set to manually installed. libsharpyuv0 is already the newest version (1.5.0-0.1+b2). libsharpyuv0 set to manually installed. libcurl4t64 is already the newest version (8.20.0-1). libcurl4t64 set to manually installed. g++ is already the newest version (4:15.2.0-5+b1). g++ set to manually installed. libx11-6 is already the newest version (2:1.8.13-1). libx11-6 set to manually installed. python3-minimal is already the newest version (3.13.9-3+b1). python3-minimal set to manually installed. texlive-latex-extra is already the newest version (2026.20260328-5). texlive-latex-extra set to manually installed. libpango-1.0-0 is already the newest version (1.57.1-2). libpango-1.0-0 set to manually installed. architecture-properties is already the newest version (0.2.6+b2). architecture-properties set to manually installed. texlive-fonts-recommended is already the newest version (2026.20260328-4). texlive-fonts-recommended set to manually installed. libmagickwand-7.q16-10 is already the newest version (8:7.1.2.21+dfsg1-1). libmagickwand-7.q16-10 set to manually installed. libpam0g is already the newest version (1.7.0-5+b2). libpsl5t64 is already the newest version (0.21.5-1). libpsl5t64 set to manually installed. media-types is already the newest version (14.0.0). media-types set to manually installed. adduser is already the newest version (3.155). adduser set to manually installed. libsepol-dev is already the newest version (3.10-1). libsepol-dev set to manually installed. libuv1t64 is already the newest version (1.51.0-2+b2). libuv1t64 set to manually installed. libngtcp2-16 is already the newest version (1.22.1-1). libngtcp2-16 set to manually installed. libngtcp2-crypto-ossl0 is already the newest version (1.22.1-1). libngtcp2-crypto-ossl0 set to manually installed. libarchive13t64 is already the newest version (3.8.7-1). libarchive13t64 set to manually installed. ucf is already the newest version (3.0053). ucf set to manually installed. libgmp10 is already the newest version (2:6.3.0+dfsg-5+b2). python3-yaml is already the newest version (6.0.3-1). python3-yaml set to manually installed. libice6 is already the newest version (2:1.1.1-1+b2). libice6 set to manually installed. libpotrace0 is already the newest version (1.16-2+b3). libpotrace0 set to manually installed. gettext is already the newest version (0.23.2-2). gettext set to manually installed. libxcb1-dev is already the newest version (1.17.0-2+b2). libxcb1-dev set to manually installed. libz3-4 is already the newest version (4.13.3-1+b2). libz3-4 set to manually installed. libperl5.40 is already the newest version (5.40.1-7+b1). libperl5.40 set to manually installed. libssl3t64 is already the newest version (3.6.2-1). libedit2 is already the newest version (3.1-20251016-1+b1). libedit2 set to manually installed. libboost-iostreams-dev is already the newest version (1.90.0.2). libboost-iostreams-dev set to manually installed. file is already the newest version (1:5.46-5+b2). file set to manually installed. python3-sqlalchemy is already the newest version (2.0.45+ds1-1). python3-sqlalchemy set to manually installed. libglycin-2-0 is already the newest version (2.0.8-1). libglycin-2-0 set to manually installed. cpp-x86-64-linux-gnu is already the newest version (4:15.2.0-5+b1). cpp-x86-64-linux-gnu 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.6v77x1w7lW (Reading database ... 80890 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.6v77x1w7lW I: running special hook: download /pkglist ./pkglist I: running --customize-hook in shell: sh -c 'rm "$1/pkglist"' exec /srv/rebuilderd/tmp/mmdebstrap.6v77x1w7lW 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.6v77x1w7lW... I: success in 219.9799 seconds Downloading dependency 503 of 510: libperl5.40:amd64=5.40.1-7+b1 Downloading dependency 504 of 510: libssl3t64:amd64=3.6.2-1 Downloading dependency 505 of 510: libedit2:amd64=3.1-20251016-1+b1 Downloading dependency 506 of 510: libboost-iostreams-dev:amd64=1.90.0.2 Downloading dependency 507 of 510: file:amd64=1:5.46-5+b2 Downloading dependency 508 of 510: python3-sqlalchemy:amd64=2.0.45+ds1-1 Downloading dependency 509 of 510: libglycin-2-0:amd64=2.0.8-1 Downloading dependency 510 of 510: cpp-x86-64-linux-gnu:amd64=4:15.2.0-5+b1 env --chdir=/srv/rebuilderd/tmp/rebuilderdHSU2j6/out DEB_BUILD_OPTIONS=parallel=6 LANG=C.UTF-8 LC_COLLATE=C.UTF-8 LC_CTYPE=C.UTF-8 SOURCE_DATE_EPOCH=1778344917 SBUILD_CONFIG=/srv/rebuilderd/tmp/debrebuildDqdrK9/debrebuild.sbuildrc.NsB_Ns3bHDJ7 sbuild --build=amd64 --host=amd64 --no-arch-any --arch-all --chroot=/srv/rebuilderd/tmp/debrebuildDqdrK9/debrebuild.tar.qntW9t7bX5D2 --chroot-mode=unshare --dist=unstable --no-run-lintian --no-run-piuparts --no-run-autopkgtest --no-apt-update --no-apt-upgrade --no-apt-distupgrade --no-source --verbose --nolog --bd-uninstallable-explainer= --build-path=/build/reproducible-path --dsc-dir=rdkit-202603.2 /srv/rebuilderd/tmp/rebuilderdHSU2j6/inputs/rdkit_202603.2-1.dsc I: consider moving your ~/.sbuildrc to /srv/rebuilderd/.config/sbuild/config.pl The Debian buildds switched to the "unshare" backend and sbuild will default to it in the future. To start using "unshare" add this to your `~/.config/sbuild/config.pl`: $chroot_mode = "unshare"; If you want to keep the old "schroot" mode even in the future, add the following to your `~/.config/sbuild/config.pl`: $chroot_mode = "schroot"; $schroot = "schroot"; sbuild (Debian sbuild) 0.89.3+deb13u4 (28 December 2025) on ionos21-amd64.debian.net +==============================================================================+ | rdkit 202603.2-1 (amd64) Thu, 14 May 2026 09:04:23 +0000 | +==============================================================================+ Package: rdkit Version: 202603.2-1 Source Version: 202603.2-1 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: all I: No tarballs found in /srv/rebuilderd/.cache/sbuild I: Unpacking /srv/rebuilderd/tmp/debrebuildDqdrK9/debrebuild.tar.qntW9t7bX5D2 to /srv/rebuilderd/tmp/tmp.sbuild.F4FnGh7mma... I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... I: Setting up apt archive... +------------------------------------------------------------------------------+ | Fetch source files Thu, 14 May 2026 09:04:43 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/rebuilderd/tmp/rebuilderdHSU2j6/inputs/rdkit_202603.2-1.dsc exists in /srv/rebuilderd/tmp/rebuilderdHSU2j6/inputs; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Thu, 14 May 2026 09:04:46 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: architecture-is-64-bit, architecture-is-little-endian, bison, catch2, cmake (>= 4.1.2-1), debhelper-compat (= 13), dh-python, doxygen, flex, imagemagick, latexmk, libboost-dev, libboost-iostreams-dev, libboost-numpy-dev, libboost-program-options-dev, libboost-python-dev, libboost-regex-dev, libboost-thread-dev, libcairo2-dev, libcoordgen-dev, libeigen3-dev, libfreetype-dev, libinchi-dev (>= 1.07.1+dfsg-2), libmaeparser-dev, librsvg2-bin, libsqlite3-dev, pandoc, postgresql-server-dev-all, python3-dev, python3-myst-parser, python3-numpy-dev, python3-pandas, python3-pil | python3-imaging, python3-pytest, python3-recommonmark, python3-sphinx, python3-sqlalchemy, rapidjson-dev, tex-gyre, texlive-fonts-recommended, texlive-latex-base, texlive-latex-extra, texlive-latex-recommended, build-essential Filtered Build-Depends: architecture-is-64-bit, architecture-is-little-endian, bison, catch2, cmake (>= 4.1.2-1), debhelper-compat (= 13), dh-python, doxygen, flex, imagemagick, latexmk, libboost-dev, libboost-iostreams-dev, libboost-numpy-dev, libboost-program-options-dev, libboost-python-dev, libboost-regex-dev, libboost-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-x1r1s2/apt_archive/sbuild-build-depends-main-dummy.deb'. Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies +------------------------------------------------------------------------------+ | Check architectures Thu, 14 May 2026 09:04:53 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment Thu, 14 May 2026 09:04:55 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 6.12.86+deb13-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.86-1 (2026-05-08) amd64 (x86_64) Toolchain package versions: binutils_2.46-3 dpkg-dev_1.23.7 g++-15_15.2.0-17 gcc-15_15.2.0-17 libc6-dev_2.42-15 libstdc++-15-dev_15.2.0-17 libstdc++6_16-20260425-1 linux-libc-dev_7.0.3-1 Package versions: adduser_3.155 architecture-properties_0.2.6+b2 autoconf_2.72-6 automake_1:1.18.1-4 autopoint_0.23.2-2 autotools-dev_20240727.1+nmu1 base-files_14 base-passwd_3.6.8 bash_5.3-3 binutils_2.46-3 binutils-common_2.46-3 binutils-x86-64-linux-gnu_2.46-3 bison_2:3.8.2+dfsg-1+b3 bsdextrautils_2.42-6 bubblewrap_0.11.2-1 build-essential_12.12 bzip2_1.0.8-6+b2 ca-certificates_20260223 catch2_3.7.1-0.6 clang-21_1:21.1.8-7+b1 cmake_4.3.2-1 coreutils_9.10-1 cpp_4:15.2.0-5+b1 cpp-15_15.2.0-17 cpp-15-x86-64-linux-gnu_15.2.0-17 cpp-x86-64-linux-gnu_4:15.2.0-5+b1 dash_0.5.12-12 debconf_1.5.92 debhelper_13.31 debianutils_5.23.2 dh-autoreconf_22 dh-python_7.20260309 dh-strip-nondeterminism_1.15.0-1 diffutils_1:3.12-1 docutils-common_0.22.4+dfsg-1 doxygen_1.15.0+ds1-1.1 dpkg_1.23.7 dpkg-dev_1.23.7 dwz_0.16-4 file_1:5.46-5+b2 findutils_4.10.0-4 flex_2.6.4-8.2+b5 fontconfig_2.17.1-5 fontconfig-config_2.17.1-5 fonts-dejavu-core_2.37-9 fonts-dejavu-mono_2.37-9 fonts-lmodern_2.005-1 g++_4:15.2.0-5+b1 g++-15_15.2.0-17 g++-15-x86-64-linux-gnu_15.2.0-17 g++-x86-64-linux-gnu_4:15.2.0-5+b1 gcc_4:15.2.0-5+b1 gcc-15_15.2.0-17 gcc-15-base_15.2.0-17 gcc-15-x86-64-linux-gnu_15.2.0-17 gcc-16-base_16-20260425-1 gcc-x86-64-linux-gnu_4:15.2.0-5+b1 gettext_0.23.2-2 gettext-base_0.23.2-2 girepository-tools_2.88.1-2 glycin-loaders_2.0.8-1 glycin-thumbnailers_2.0.8-1 grep_3.12-1 groff-base_1.24.1-1 gzip_1.13-1 hicolor-icon-theme_0.18-2 hostname_3.25 imagemagick_8:7.1.2.21+dfsg1-1 imagemagick-7-common_8:7.1.2.21+dfsg1-1 imagemagick-7.q16_8:7.1.2.21+dfsg1-1 init-system-helpers_1.69 intltool-debian_0.35.0+20060710.6 latexmk_1:4.88~ds-1 libabsl20260107_20260107.0-5 libacl1_2.3.2-3 libaom3_3.13.1-2+b1 libapache-pom-java_33-2 libarchive-zip-perl_1.68-1 libarchive13t64_3.8.7-1 libasan8_16-20260425-1 libatomic1_16-20260425-1 libattr1_1:2.5.2-4 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1+b1 libavif16_1.4.1-1+b1 libbinutils_2.46-3 libblas3_3.12.1-7+b2 libblkid-dev_2.42-6 libblkid1_2.42-6 libboost-atomic1.90-dev_1.90.0-6 libboost-atomic1.90.0_1.90.0-6 libboost-chrono1.90-dev_1.90.0-6 libboost-chrono1.90.0_1.90.0-6 libboost-container1.90-dev_1.90.0-6 libboost-container1.90.0_1.90.0-6 libboost-date-time1.90-dev_1.90.0-6 libboost-date-time1.90.0_1.90.0-6 libboost-dev_1.90.0.2 libboost-exception1.90-dev_1.90.0-6 libboost-graph1.90-dev_1.90.0-6 libboost-graph1.90.0_1.90.0-6 libboost-iostreams-dev_1.90.0.2 libboost-iostreams1.90-dev_1.90.0-6 libboost-iostreams1.90.0_1.90.0-6 libboost-numpy-dev_1.90.0.2 libboost-numpy1.90-dev_1.90.0-6 libboost-numpy1.90.0_1.90.0-6 libboost-program-options-dev_1.90.0.2 libboost-program-options1.90-dev_1.90.0-6 libboost-program-options1.90.0_1.90.0-6 libboost-python-dev_1.90.0.2 libboost-python1.90-dev_1.90.0-6 libboost-python1.90.0_1.90.0-6 libboost-random1.90-dev_1.90.0-6 libboost-random1.90.0_1.90.0-6 libboost-regex-dev_1.90.0.2 libboost-regex1.90-dev_1.90.0-6 libboost-regex1.90.0_1.90.0-6 libboost-serialization1.90-dev_1.90.0-6 libboost-serialization1.90.0_1.90.0-6 libboost-test1.90-dev_1.90.0-6 libboost-test1.90.0_1.90.0-6 libboost-thread-dev_1.90.0.2 libboost-thread1.90-dev_1.90.0-6 libboost-thread1.90.0_1.90.0-6 libboost1.90-dev_1.90.0-6 libbrotli-dev_1.2.0-3 libbrotli1_1.2.0-3 libbsd0_0.12.2-2+b2 libbz2-1.0_1.0.8-6+b2 libbz2-dev_1.0.8-6+b2 libc-bin_2.42-15 libc-dev-bin_2.42-15 libc-gconv-modules-extra_2.42-15 libc6_2.42-15 libc6-dev_2.42-15 libcairo-gobject2_1.18.4-3+b1 libcairo-script-interpreter2_1.18.4-3+b1 libcairo2_1.18.4-3+b1 libcairo2-dev_1.18.4-3+b1 libcap-ng0_0.9.3-1 libcap2_1:2.78-1 libcatch2-dev_3.7.1-0.6+b1 libcc1-0_16-20260425-1 libclang-common-21-dev_1:21.1.8-7+b1 libclang-cpp21_1:21.1.8-7+b1 libclang1-21_1:21.1.8-7+b1 libcom-err2_1.47.4-1 libcommons-logging-java_1.3.0-2 libcommons-parent-java_56-1 libcoordgen-dev_3.0.2-4 libcoordgen3_3.0.2-4 libcrypt1_1:4.5.1-1+b1 libctf-nobfd0_2.46-3 libctf0_2.46-3 libcurl4t64_8.20.0-1 libdatrie1_0.2.14-1+b1 libdav1d7_1.5.3-1+b2 libdb5.3t64_5.3.28+dfsg2-11+b1 libde265-0_1.0.18-1 libdebconfclient0_0.282+b3 libdebhelper-perl_13.31 libdeflate0_1.23-2+b2 libdpkg-perl_1.23.7 libedit2_3.1-20251016-1+b1 libeigen3-dev_3.4.0-5 libelf1t64_0.195-1 libexpat1_2.8.0-1 libexpat1-dev_2.8.0-1 libffi-dev_3.5.2-4 libffi8_3.5.2-4 libfftw3-double3_3.3.10-2+b2 libfile-stripnondeterminism-perl_1.15.0-1 libfmt10_10.1.1+ds1-4+b2 libfontbox-java_1:1.8.16-5 libfontconfig-dev_2.17.1-5 libfontconfig1_2.17.1-5 libfontenc1_1:1.1.8-1+b3 libfreetype-dev_2.14.3+dfsg-1 libfreetype6_2.14.3+dfsg-1 libfribidi0_1.0.16-5+b1 libgav1-2_0.20.0-2+b1 libgc1_1:8.2.12-1 libgcc-15-dev_15.2.0-17 libgcc-s1_16-20260425-1 libgdbm-compat4t64_1.26-1+b2 libgdbm6t64_1.26-1+b2 libgdk-pixbuf-2.0-0_2.44.6+dfsg-2 libgdk-pixbuf2.0-common_2.44.6+dfsg-2 libgfortran5_16-20260425-1 libgio-2.0-dev_2.88.1-2 libgio-2.0-dev-bin_2.88.1-2 libgirepository-2.0-0_2.88.1-2 libglib2.0-0t64_2.88.1-2 libglib2.0-bin_2.88.1-2 libglib2.0-data_2.88.1-2 libglib2.0-dev_2.88.1-2 libglib2.0-dev-bin_2.88.1-2 libglycin-2-0_2.0.8-1 libgmp10_2:6.3.0+dfsg-5+b2 libgomp1_16-20260425-1 libgprofng0_2.46-3 libgraphite2-3_1.3.14-13 libgssapi-krb5-2_1.22.1-2+b1 libharfbuzz-subset0_12.3.2-2+b2 libharfbuzz0b_12.3.2-2+b2 libheif-plugin-dav1d_1.21.2-4 libheif-plugin-libde265_1.21.2-4 libheif1_1.21.2-4 libhwasan0_16-20260425-1 libhwy1t64_1.3.0-2+b1 libice-dev_2:1.1.1-1+b2 libice6_2:1.1.1-1+b2 libicu78_78.3-1 libidn2-0_2.3.8-4+b2 libimagequant0_4.4.1-1+b2 libinchi-dev_1.07.3+dfsg-2 libinchi1.07_1.07.3+dfsg-2 libio-pty-perl_1:1.28-1 libipc-run-perl_20260402.0-1 libisl23_0.27-2 libitm1_16-20260425-1 libjansson4_2.14-2+b4 libjbig0_2.1-6.1+b3 libjpeg62-turbo_1:3.1.3-4 libjs-sphinxdoc_9.1.0-2 libjson-perl_4.10000-1 libjsoncpp26_1.9.7-2 libjxl0.11_0.11.2-1 libk5crypto3_1.22.1-2+b1 libkeyutils1_1.6.3-6+b2 libkpathsea6_2026.20260303.78225+ds-3 libkrb5-3_1.22.1-2+b1 libkrb5support0_1.22.1-2+b1 liblapack3_3.12.1-7+b2 liblcms2-2_2.19.1-1 libldap2_2.6.10+dfsg-1+b2 liblerc4_4.1.0+ds-1 libllvm21_1:21.1.8-7+b1 liblqr-1-0_0.4.2-2.2+b1 liblsan0_16-20260425-1 libltdl7_2.5.4-11 liblua5.4-0_5.4.8-1+b2 liblz4-1_1.10.0-10 liblzma-dev_5.8.3-1 liblzma5_5.8.3-1 liblzo2-2_2.10-3+b2 libmaeparser-dev_1.3.3-4+b1 libmaeparser1_1.3.3-4+b1 libmagic-mgc_1:5.46-5+b2 libmagic1t64_1:5.46-5+b2 libmagickcore-7.q16-10_8:7.1.2.21+dfsg1-1 libmagickwand-7.q16-10_8:7.1.2.21+dfsg1-1 libmd0_1.1.0-2+b2 libmount-dev_2.42-6 libmount1_2.42-6 libmpc3_1.3.1-3 libmpfi0_1.5.4+ds-5 libmpfr6_4.2.2-3 libncurses-dev_6.6+20251231-1+b1 libncurses6_6.6+20251231-1+b1 libncursesw6_6.6+20251231-1+b1 libnettle8t64_3.10.2-1+b1 libnghttp2-14_1.69.0-1 libnghttp3-9_1.15.0-1 libngtcp2-16_1.22.1-1 libngtcp2-crypto-ossl0_1.22.1-1 libnuma1_2.0.19-1+b2 libobjc-15-dev_15.2.0-17 libobjc4_16-20260425-1 libopenjp2-7_2.5.4-1.1 libpam-modules_1.7.0-5+b2 libpam-modules-bin_1.7.0-5+b2 libpam-runtime_1.7.0-5 libpam0g_1.7.0-5+b2 libpango-1.0-0_1.57.1-2 libpangocairo-1.0-0_1.57.1-2 libpangoft2-1.0-0_1.57.1-2 libpaper-utils_2.2.5-0.3+b3 libpaper2_2.2.5-0.3+b3 libpcre2-16-0_10.46-1+b2 libpcre2-32-0_10.46-1+b2 libpcre2-8-0_10.46-1+b2 libpcre2-dev_10.46-1+b2 libpcre2-posix3_10.46-1+b2 libpdfbox-java_1:1.8.16-5 libperl5.40_5.40.1-7+b1 libpfm4_4.13.0+git106-g3e4031b-1+b2 libpipeline1_1.5.8-3 libpixman-1-0_0.46.4-1+b2 libpixman-1-dev_0.46.4-1+b2 libpkgconf7_2.5.1-4 libpng-dev_1.6.58-1 libpng16-16t64_1.6.58-1 libpotrace0_1.16-2+b3 libpq-dev_18.3-1+b1 libpq5_18.3-1+b1 libproc2-0_2:4.0.4-9+b2 libpsl5t64_0.21.5-1 libptexenc1_2026.20260303.78225+ds-3 libpython3-dev_3.13.9-3+b1 libpython3-stdlib_3.13.9-3+b1 libpython3.13_3.13.12-1 libpython3.13-dev_3.13.12-1 libpython3.13-minimal_3.13.12-1 libpython3.13-stdlib_3.13.12-1 libquadmath0_16-20260425-1 libraqm0_0.10.5-1 librav1e0.8_0.8.1-10 libraw23t64_0.21.5b-1+b1 libreadline8t64_8.3-4 librhash1_1.4.6-1.1+b1 librsvg2-2_2.62.1+dfsg-1 librsvg2-bin_2.62.1+dfsg-1 libsasl2-2_2.1.28+dfsg1-11 libsasl2-modules-db_2.1.28+dfsg1-11 libseccomp2_2.6.0-2+b1 libselinux-dev_3.10-1 libselinux1_3.10-1 libsemanage-common_3.10-1 libsemanage2_3.10-1 libsepol-dev_3.10-1 libsepol2_3.10-1 libsframe3_2.46-3 libsharpyuv0_1.5.0-0.1+b2 libsm-dev_2:1.2.6-1+b2 libsm6_2:1.2.6-1+b2 libsmartcols1_2.42-6 libspdlog1.15_1:1.15.3+ds-1+b2 libsqlite3-0_3.46.1-9+b1 libsqlite3-dev_3.46.1-9+b1 libssh2-1t64_1.11.1-2 libssl-dev_3.6.2-1 libssl3t64_3.6.2-1 libstdc++-15-dev_15.2.0-17 libstdc++6_16-20260425-1 libsvtav1enc4_4.1.0+dfsg-1 libsynctex2_2026.20260303.78225+ds-3 libsysprof-capture-4-dev_50.0-3 libsystemd0_260.1-1 libteckit0_2.5.13+ds-1+b1 libtexlua53-5_2026.20260303.78225+ds-3 libtext-charwidth-perl_0.04-12 libtext-wrapi18n-perl_0.06-11 libthai-data_0.1.30-1 libthai0_0.1.30-1+b1 libtiff6_4.7.1-2 libtinfo6_6.6+20251231-1+b1 libtool_2.5.4-11 libtsan2_16-20260425-1 libubsan1_16-20260425-1 libuchardet0_0.0.8-2+b2 libudev1_260.1-1 libunistring5_1.4.2-1 libuuid1_2.42-6 libuv1t64_1.51.0-2+b2 libwebp7_1.5.0-0.1+b2 libwebpdemux2_1.5.0-0.1+b2 libwebpmux3_1.5.0-0.1+b2 libx11-6_2:1.8.13-1 libx11-data_2:1.8.13-1 libx11-dev_2:1.8.13-1 libxapian30_1.4.31-2 libxau-dev_1:1.0.11-1+b2 libxau6_1:1.0.11-1+b2 libxaw7_2:1.0.16-1+b2 libxcb-render0_1.17.0-2+b2 libxcb-render0-dev_1.17.0-2+b2 libxcb-shm0_1.17.0-2+b2 libxcb-shm0-dev_1.17.0-2+b2 libxcb1_1.17.0-2+b2 libxcb1-dev_1.17.0-2+b2 libxdmcp-dev_1:1.1.5-2+b1 libxdmcp6_1:1.1.5-2+b1 libxext-dev_2:1.3.4-1+b4 libxext6_2:1.3.4-1+b4 libxi6_2:1.8.2-2+b1 libxml2-16_2.15.2+dfsg-0.1 libxml2-dev_2.15.2+dfsg-0.1 libxmu6_2:1.1.3-4+b1 libxpm4_1:3.5.19-1 libxrender-dev_1:0.9.12-1+b2 libxrender1_1:0.9.12-1+b2 libxt6t64_1:1.2.1-1.3+b2 libxxhash0_0.8.3-2+b2 libyaml-0-2_0.2.5-2+b1 libyuv0_0.0.1922.20260106-1+b1 libz3-4_4.13.3-1+b2 libz3-dev_4.13.3-1+b2 libzstd1_1.5.7+dfsg-3+b2 libzzip-0-13t64_0.13.78+dfsg.1-0.2+b1 linux-libc-dev_7.0.3-1 llvm-21_1:21.1.8-7+b1 llvm-21-dev_1:21.1.8-7+b1 llvm-21-linker-tools_1:21.1.8-7+b1 llvm-21-runtime_1:21.1.8-7+b1 llvm-21-tools_1:21.1.8-7+b1 login.defs_1:4.19.3-2 m4_1.4.21-1 make_4.4.1-3 man-db_2.13.1-1 mawk_1.3.4.20260302-1 media-types_14.0.0 native-architecture_0.2.6 ncurses-base_6.6+20251231-1 ncurses-bin_6.6+20251231-1+b1 netbase_6.5 openssl_3.6.2-1 openssl-provider-legacy_3.6.2-1 pandoc_3.9.0.2-1 pandoc-data_3.9.0.2-1 passwd_1:4.19.3-2 patch_2.8-2 perl_5.40.1-7+b1 perl-base_5.40.1-7+b1 perl-modules-5.40_5.40.1-7 pkgconf_2.5.1-4 pkgconf-bin_2.5.1-4 po-debconf_1.0.22 postgresql-client-18_18.3-1+b1 postgresql-client-common_290 postgresql-common_290 postgresql-common-dev_290 postgresql-server-dev-18_18.3-1+b1 postgresql-server-dev-all_290 preview-latex-style_13.2-1.1 procps_2:4.0.4-9+b2 python-babel-localedata_2.17.0-2 python3_3.13.9-3+b1 python3-alabaster_1.0.0-1 python3-babel_2.17.0-2 python3-certifi_2026.4.22+ds-1 python3-chardet_5.2.0+dfsg-2 python3-charset-normalizer_3.4.7-1 python3-commonmark_0.9.1-8 python3-dateutil_2.9.0-4 python3-defusedxml_0.7.1-3 python3-dev_3.13.9-3+b1 python3-docutils_0.22.4+dfsg-1 python3-greenlet_3.3.2-2 python3-idna_3.11-1 python3-imagesize_2.0.0-1 python3-iniconfig_2.1.0-2 python3-jinja2_3.1.6-2 python3-linkify-it_2.1.0-1 python3-markdown-it_4.0.0-1 python3-markupsafe_3.0.3-1+b1 python3-mdit-py-plugins_0.5.0-1 python3-mdurl_0.1.2-1 python3-minimal_3.13.9-3+b1 python3-myst-parser_4.0.1-1 python3-numpy_1:2.4.4+ds-2 python3-numpy-dev_1:2.4.4+ds-2 python3-packaging_26.0-1 python3-pandas_2.3.3+dfsg-3 python3-pandas-lib_2.3.3+dfsg-3+b1 python3-pil_12.2.0-1 python3-pluggy_1.6.0-2 python3-pygments_2.19.2+dfsg-1 python3-pytest_9.0.3-1 python3-pytz_2025.2-6 python3-recommonmark_0.7.1+ds-8 python3-requests_2.32.5+dfsg-1 python3-roman-numerals_4.1.0-1 python3-snowballstemmer_3.0.1-1 python3-sphinx_9.1.0-2 python3-sqlalchemy_2.0.45+ds1-1 python3-typing-extensions_4.15.0-2 python3-uc-micro_2.0.0-1 python3-urllib3_2.6.3-2 python3-yaml_6.0.3-1 python3.13_3.13.12-1 python3.13-dev_3.13.12-1 python3.13-minimal_3.13.12-1 rapidjson-dev_1.1.0+dfsg2-7.6 readline-common_8.3-4 rpcsvc-proto_1.4.3-1 sed_4.9-3 sensible-utils_0.0.26 sgml-base_1.31+nmu1 shared-mime-info_2.4-5+b3 sphinx-common_9.1.0-2 ssl-cert_1.1.3 sysvinit-utils_3.18-1 t1utils_1.41-4 tar_1.35+dfsg-4 tex-common_6.20 tex-gyre_20180621-7 texlive-base_2026.20260328-4 texlive-binaries_2026.20260303.78225+ds-3 texlive-fonts-recommended_2026.20260328-4 texlive-latex-base_2026.20260328-4 texlive-latex-extra_2026.20260328-5 texlive-latex-recommended_2026.20260328-4 texlive-pictures_2026.20260328-4 tzdata_2026b-1 ucf_3.0053 util-linux_2.42-6 uuid-dev_2.42-6 x11-common_1:7.7+26 x11proto-dev_2025.1-1 xdg-utils_1.2.1-2 xfonts-encodings_1:1.0.4-2.2 xfonts-utils_1:7.7+7 xml-core_0.20 xorg-sgml-doctools_1:1.12.1-1 xtrans-dev_1.6.0-1 xz-utils_5.8.3-1 zlib1g_1:1.3.dfsg+really1.3.2-3 zlib1g-dev_1:1.3.dfsg+really1.3.2-3 +------------------------------------------------------------------------------+ | Build Thu, 14 May 2026 09:04:55 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: rdkit Binary: python3-rdkit, rdkit-doc, rdkit-data, librdkit1t64, librdkit-dev, postgresql-18-rdkit Architecture: any all Version: 202603.2-1 Maintainer: Debichem Team Uploaders: Michael Banck , Andrius Merkys , Roland Mas , Homepage: http://www.rdkit.org Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/debichem-team/rdkit Vcs-Git: https://salsa.debian.org/debichem-team/rdkit.git Testsuite: autopkgtest Testsuite-Triggers: dpkg-dev, postgresql-common-dev Build-Depends: architecture-is-64-bit, architecture-is-little-endian, bison, catch2, cmake (>= 4.1.2-1), debhelper-compat (= 13), dh-python, doxygen, flex, imagemagick, latexmk, libboost-dev, libboost-iostreams-dev, libboost-numpy-dev, libboost-program-options-dev, libboost-python-dev, libboost-regex-dev, libboost-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: 50ab510d8a144517aefa2d3109d71180e314d46f 64100300 rdkit_202603.2.orig.tar.xz 4d8c17d243891024df1d5ac4d447a63a17207f2e 49232 rdkit_202603.2-1.debian.tar.xz Checksums-Sha256: 7972fdd15e0308bca40ff9b3da51d5b6ecbb291d34104dbddc9ed5cc2ea92ee2 64100300 rdkit_202603.2.orig.tar.xz 6f3398d2f48d09d04179c30fc62a9b2bf2767ff17f50aa7e295623043efc598a 49232 rdkit_202603.2-1.debian.tar.xz Files: 8016c41069801f83663d71a80a2875f0 64100300 rdkit_202603.2.orig.tar.xz 7001c69257836a93ef0d5d630e498830 49232 rdkit_202603.2-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCAAdFiEEnKh3dJ+rLk+paGLs3GhqJ7Q0gbAFAmn/Y94ACgkQ3GhqJ7Q0 gbBPdw/+P7WbXLdnI8kRrGZlAsgeVM7KkRZ8mnlm/zhreo7aypqMN2tJ1aTTrudJ +YR5LzH0g328OuKWfxKCMKqUuCFzUrjkUdbgixnzWmcH6YVjwRIzHMGLh1j4aSK6 u9jWFXjrT+ej3HcyN2MOgb62c3J5YklQZpxjXo9ZGecfBaDnRAy7OBghVODJFOxB sPx9wIb+MYsO1rcTsslMVluC+RHW9ae9eSTjG0k/nfG/1ynoYwzx6TJSvyzFAHg+ 5/MvtxWJYF9WFWb4EywOI99f9oaS5dCS+lC7MrLhT4Auisvpyu+8Qvmwco+1sNHm xsp/CU9uPyBW0kcYdjiffDZTp3EdL+7iWDb8wDPyJi0QJ7yweDewmGhW3Dd3/Ldp SRcXWZNKY7gA7se37EVqwPIG9EadkHuMCrLQ+e9hCu8vuKeMQVav3wFEJ2DfkYhL n+Z2K9omUMKaSMFdvyplbK5GspN2YOeRX6ukAXQJ8LttVOIxt1Vum74kLAqZSTbQ 6Am+T0NYF/8fm7qeGSQIBNbzmA6memS5BKwCqSujShkzpb6/furgsKgRtjj4aNB4 mPjZ0Pu1rxEKu1r58Wiu3BphCSZ9hzxJby/nL5v5YnGpSwUJRA/0YdXigHei7XQi MDUdx/iuWwezrv7FaQiqfcmjYaNqcyAFLPF/Py/34dAFnjeFyVw= =DEtf -----END PGP SIGNATURE----- dpkg-source: warning: cannot verify inline signature for ./rdkit_202603.2-1.dsc: missing OpenPGP keyrings dpkg-source: info: verifying ./rdkit_202603.2-1.dsc dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-keyring.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-tag2upload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-nonupload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-maintainers.pgp dpkg-source: info: extracting rdkit in /build/reproducible-path/rdkit-202603.2 dpkg-source: info: unpacking rdkit_202603.2.orig.tar.xz dpkg-source: info: unpacking rdkit_202603.2-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying NoDownloads.patch dpkg-source: info: applying postgres_Makefile_fixes.patch dpkg-source: info: applying sphinx_imgconverter.patch dpkg-source: info: applying postgres_alternative_test_outputs.patch dpkg-source: info: applying sphinx_compile_fixes.patch dpkg-source: info: applying extra_float_digits dpkg-source: info: applying postgres_cmakelists_fixes.patch dpkg-source: info: applying disable_pgsql_test.patch dpkg-source: info: applying fix_inchi_linking.patch dpkg-source: info: applying disable_inchi_test.patch dpkg-source: info: applying disable_python_test.patch dpkg-source: info: applying better_enums.patch dpkg-source: info: applying fix-shebangs.patch dpkg-source: info: applying remove-badges.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=6 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LC_COLLATE=C.UTF-8 LC_CTYPE=C.UTF-8 LOGNAME=sbuild PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SHELL=/bin/sh SOURCE_DATE_EPOCH=1778344917 USER=sbuild dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -A dpkg-buildpackage: info: source package rdkit dpkg-buildpackage: info: source version 202603.2-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael Banck dpkg-source --before-build . 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-202603.2' find /build/reproducible-path/rdkit-202603.2 -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-202603.2/Code/PgSQL/rdkit/build-* make[1]: Leaving directory '/build/reproducible-path/rdkit-202603.2' dh_autoreconf_clean -O--buildsystem=cmake dh_clean -O--buildsystem=cmake debian/rules binary-indep dh binary-indep --with python3 --buildsystem=cmake dh_update_autotools_config -i -O--buildsystem=cmake dh_autoreconf -i -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/rdkit-202603.2' dh_auto_configure -- -DCMAKE_BUILD_TYPE=None -DCMAKE_SKIP_RPATH=ON -DRDK_INSTALL_INTREE=OFF -DRDK_INSTALL_STATIC_LIBS=OFF -DRDK_BUILD_THREADSAFE_SSS=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -DRDK_BUILD_INCHI_SUPPORT=ON -DRDK_OPTIMIZE_POPCNT=OFF -DRDK_USE_URF=OFF -DRDK_INSTALL_COMIC_FONTS=OFF -DRDK_BUILD_CAIRO_SUPPORT=ON -DRDK_BUILD_PUBCHEMSHAPE_SUPPORT=OFF -DRDK_BUILD_XYZ2MOL_SUPPORT=ON -DRDK_BUILD_CHEMDRAW_SUPPORT=OFF -DBoost_NO_BOOST_CMAKE=TRUE -DCMAKE_INSTALL_PREFIX=/usr -DCATCH_DIR=/usr/include/catch2 -DRDK_BUILD_PGSQL=ON -DRDK_PGSQL_STATIC=OFF -DPostgreSQL_CONFIG=/usr/bin/pg_config -DPostgreSQL_TYPE_INCLUDE_DIR="/usr/include/postgresql/18/server" -DCMAKE_CTEST_ARGUMENTS=--timeout=7200 -DPYTHON_EXECUTABLE=/usr/bin/python3.13 ../ cd obj-x86_64-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/x86_64-linux-gnu -DCMAKE_BUILD_TYPE=None -DCMAKE_SKIP_RPATH=ON -DRDK_INSTALL_INTREE=OFF -DRDK_INSTALL_STATIC_LIBS=OFF -DRDK_BUILD_THREADSAFE_SSS=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -DRDK_BUILD_INCHI_SUPPORT=ON -DRDK_OPTIMIZE_POPCNT=OFF -DRDK_USE_URF=OFF -DRDK_INSTALL_COMIC_FONTS=OFF -DRDK_BUILD_CAIRO_SUPPORT=ON -DRDK_BUILD_PUBCHEMSHAPE_SUPPORT=OFF -DRDK_BUILD_XYZ2MOL_SUPPORT=ON -DRDK_BUILD_CHEMDRAW_SUPPORT=OFF -DBoost_NO_BOOST_CMAKE=TRUE -DCMAKE_INSTALL_PREFIX=/usr -DCATCH_DIR=/usr/include/catch2 -DRDK_BUILD_PGSQL=ON -DRDK_PGSQL_STATIC=OFF -DPostgreSQL_CONFIG=/usr/bin/pg_config -DPostgreSQL_TYPE_INCLUDE_DIR=/usr/include/postgresql/18/server -DCMAKE_CTEST_ARGUMENTS=--timeout=7200 -DPYTHON_EXECUTABLE=/usr/bin/python3.13 ../ .. -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found Inchi: /usr/lib/x86_64-linux-gnu/libinchi.so -- Found Python3: /usr/bin/python3 (found version "3.13.12") 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/x86_64-linux-gnu/libpq.so (found version "18.3") == Using strict rotor definition -- Found Python3: /usr/bin/python3 (found version "3.13.12") found components: Interpreter -- Found PkgConfig: /usr/bin/pkg-config (found version "2.5.1") -- Found Cairo: /usr/include/cairo -- Found Freetype: /usr/lib/x86_64-linux-gnu/libfreetype.so (found version "2.14.3") 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 (1.9s) -- Generating done (1.3s) 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-202603.2/obj-x86_64-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/x86_64-linux-gnu/libpq.so (found version "18.3") postgres: /usr/include/postgresql;/usr/include/postgresql/18/server CMake Warning (dev) at CMakeLists.txt:308 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:308 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:308 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Configuring done (0.6s) -- Generating done (0.0s) -- Build files have been written to: /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18 make[1]: Leaving directory '/build/reproducible-path/rdkit-202603.2' debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/rdkit-202603.2' dh_auto_build cd obj-x86_64-linux-gnu && make -j6 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/rdkit-202603.2 -B/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/depend make -f Code/RDGeneral/CMakeFiles/rdkitCatch.dir/build.make Code/RDGeneral/CMakeFiles/rdkitCatch.dir/depend make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/depend make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/depend make -f External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build.make External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/depend make -f External/GA/CMakeFiles/ga.dir/build.make External/GA/CMakeFiles/ga.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral/CMakeFiles/RDGeneral.dir/DependInfo.cmake "--color=" RDGeneral make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral/CMakeFiles/rdkitCatch.dir/DependInfo.cmake "--color=" rdkitCatch make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/External/INCHI-API /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/INCHI-API /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/INCHI-API/CMakeFiles/inchi_support.dir/DependInfo.cmake "--color=" inchi_support make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/External/RingFamilies /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/RingFamilies /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/DependInfo.cmake "--color=" ringdecomposerlib_support make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/External/CoordGen /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/CoordGen /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/CoordGen/CMakeFiles/coordgen_support.dir/DependInfo.cmake "--color=" coordgen_support make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/External/GA /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/GA /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/GA/CMakeFiles/ga.dir/DependInfo.cmake "--color=" ga make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/rdkitCatch.dir/build.make Code/RDGeneral/CMakeFiles/rdkitCatch.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build.make External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build make -f External/GA/CMakeFiles/ga.dir/build.make External/GA/CMakeFiles/ga.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/INCHI-API && /usr/bin/cmake -E copy /build/reproducible-path/rdkit-202603.2/External/INCHI-API/python/inchi.py /build/reproducible-path/rdkit-202603.2/rdkit/Chem/inchi.py make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'External/CoordGen/CMakeFiles/coordgen_support.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 0%] Building CXX object Code/RDGeneral/CMakeFiles/rdkitCatch.dir/catch_main.cpp.o [ 0%] Built target ringdecomposerlib_support [ 0%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/Invariant.cpp.o [ 0%] Building CXX object External/GA/CMakeFiles/ga.dir/ga/StringChromosome.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/rdkitCatch.dir/catch_main.cpp.o -MF CMakeFiles/rdkitCatch.dir/catch_main.cpp.o.d -o CMakeFiles/rdkitCatch.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/catch_main.cpp make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/depend cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/Invariant.cpp.o -MF CMakeFiles/RDGeneral.dir/Invariant.cpp.o.d -o CMakeFiles/RDGeneral.dir/Invariant.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/Invariant.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=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/StringChromosome.cpp.o -MF CMakeFiles/ga.dir/ga/StringChromosome.cpp.o.d -o CMakeFiles/ga.dir/ga/StringChromosome.cpp.o -c /build/reproducible-path/rdkit-202603.2/External/GA/ga/StringChromosome.cpp [ 0%] Built target coordgen_support make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/RDStreams /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDStreams /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDStreams/CMakeFiles/RDStreams.dir/DependInfo.cmake "--color=" RDStreams make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 0%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/types.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/types.cpp.o -MF CMakeFiles/RDGeneral.dir/types.cpp.o.d -o CMakeFiles/RDGeneral.dir/types.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/types.cpp [ 0%] Built target inchi_support make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/build 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-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/DependInfo.cmake "--color=" hc [ 0%] Building CXX object Code/RDStreams/CMakeFiles/RDStreams.dir/streams.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDStreams && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_RDSTREAMS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDStreams_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -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-202603.2/Code/RDStreams/streams.cpp make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 0%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hc.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dhc_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/ML/Cluster/Murtagh/hc.c [ 0%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hcdriver.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dhc_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -std=gnu99 -fPIC -MD -MT Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hcdriver.c.o -MF CMakeFiles/hc.dir/hcdriver.c.o.d -o CMakeFiles/hc.dir/hcdriver.c.o -c /build/reproducible-path/rdkit-202603.2/Code/ML/Cluster/Murtagh/hcdriver.c [ 0%] Linking C shared library ../../../../lib/libRDKithc.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/hc.dir/link.txt --verbose=1 /usr/bin/cc -fPIC -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hc.dir/link.d -Wl,-soname,libRDKithc.so.1 -o ../../../../lib/libRDKithc.so.1.2026.03.2 CMakeFiles/hc.dir/hc.c.o CMakeFiles/hc.dir/hcdriver.c.o /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_symlink_library ../../../../lib/libRDKithc.so.1.2026.03.2 ../../../../lib/libRDKithc.so.1 ../../../../lib/libRDKithc.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 0%] Built target hc [ 0%] Building CXX object External/GA/CMakeFiles/ga.dir/ga/Chromosome.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=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/Chromosome.cpp.o -MF CMakeFiles/ga.dir/ga/Chromosome.cpp.o.d -o CMakeFiles/ga.dir/ga/Chromosome.cpp.o -c /build/reproducible-path/rdkit-202603.2/External/GA/ga/Chromosome.cpp [ 0%] Building CXX object External/GA/CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT External/GA/CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o -MF CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o.d -o CMakeFiles/ga.dir/ga/IntegerStringChromosomePolicy.cpp.o -c /build/reproducible-path/rdkit-202603.2/External/GA/ga/IntegerStringChromosomePolicy.cpp [ 0%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/utils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/RDGeneral/utils.cpp [ 0%] Building CXX object External/GA/CMakeFiles/ga.dir/ga/BinaryStringChromosomePolicy.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=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-202603.2/External/GA/ga/BinaryStringChromosomePolicy.cpp [ 0%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDGeneralExceptions.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/RDGeneralExceptions.cpp.o -MF CMakeFiles/RDGeneral.dir/RDGeneralExceptions.cpp.o.d -o CMakeFiles/RDGeneral.dir/RDGeneralExceptions.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDGeneralExceptions.cpp [ 0%] Building CXX object External/GA/CMakeFiles/ga.dir/util/RandomUtil.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT External/GA/CMakeFiles/ga.dir/util/RandomUtil.cpp.o -MF CMakeFiles/ga.dir/util/RandomUtil.cpp.o.d -o CMakeFiles/ga.dir/util/RandomUtil.cpp.o -c /build/reproducible-path/rdkit-202603.2/External/GA/util/RandomUtil.cpp [ 0%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDLog.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/RDGeneral/RDLog.cpp [ 0%] Linking CXX static library librdkitCatch.a cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -P CMakeFiles/rdkitCatch.dir/cmake_clean_target.cmake cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 0%] Built target rdkitCatch [ 0%] Building CXX object External/GA/CMakeFiles/ga.dir/util/Util.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/GA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dga_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT External/GA/CMakeFiles/ga.dir/util/Util.cpp.o -MF CMakeFiles/ga.dir/util/Util.cpp.o.d -o CMakeFiles/ga.dir/util/Util.cpp.o -c /build/reproducible-path/rdkit-202603.2/External/GA/util/Util.cpp [ 0%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/RDGeneral/LocaleSwitcher.cpp [ 0%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/versions.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/RDGeneral/versions.cpp [ 1%] Linking CXX shared library ../../lib/libRDKitRDStreams.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDStreams && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDStreams.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/RDStreams.dir/link.d -Wl,-soname,libRDKitRDStreams.so.1 -o ../../lib/libRDKitRDStreams.so.1.2026.03.2 CMakeFiles/RDStreams.dir/streams.cpp.o /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDStreams && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDStreams.so.1.2026.03.2 ../../lib/libRDKitRDStreams.so.1 ../../lib/libRDKitRDStreams.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 1%] Built target RDStreams [ 1%] Linking CXX shared library ../../lib/libRDKitga.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/GA && /usr/bin/cmake -E cmake_link_script CMakeFiles/ga.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ga.dir/link.d -Wl,-soname,libRDKitga.so.1 -o ../../lib/libRDKitga.so.1.2026.03.2 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/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/GA && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitga.so.1.2026.03.2 ../../lib/libRDKitga.so.1 ../../lib/libRDKitga.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 1%] Built target ga [ 1%] Linking CXX shared library ../../lib/libRDKitRDGeneral.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeneral.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/RDGeneral.dir/link.d -Wl,-soname,libRDKitRDGeneral.so.1 -o ../../lib/libRDKitRDGeneral.so.1.2026.03.2 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/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDGeneral.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1 ../../lib/libRDKitRDGeneral.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 1%] 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 -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/depend make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/depend make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/DataStructs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake "--color=" DataStructs make -f Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build.make Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Numerics/EigenSolvers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake "--color=" EigenSolvers make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/RDBoost /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDBoost /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake "--color=" RDBoost make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral/CMakeFiles/testDict.dir/DependInfo.cmake "--color=" testDict make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/DependInfo.cmake "--color=" testRDValue make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/DependInfo.cmake "--color=" testConcurrentQueue make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build make -f Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build.make Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/testDict.dir/testDict.cpp.o [ 1%] Building CXX object Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o [ 1%] Building CXX object Code/RDBoost/CMakeFiles/RDBoost.dir/Wrap.cpp.o [ 1%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitVect.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/RDGeneral/testDict.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Numerics/EigenSolvers/PowerEigenSolver.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDBoost && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/python3.13 -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/RDBoost/Wrap.cpp [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataStructs/BitVect.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -MF CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o.d -o CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/testConcurrentQueue.cpp [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/testRDValue.dir/testRDValue.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/RDGeneral/testRDValue.cpp [ 1%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataStructs/SparseBitVect.cpp [ 1%] Linking CXX executable testConcurrentQueue cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testConcurrentQueue.dir/link.txt --verbose=1 [ 1%] Linking CXX shared library ../../../lib/libRDKitEigenSolvers.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_link_script CMakeFiles/EigenSolvers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/EigenSolvers.dir/link.d -Wl,-soname,libRDKitEigenSolvers.so.1 -o ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1 ../../../lib/libRDKitEigenSolvers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testConcurrentQueue.dir/link.d CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -o testConcurrentQueue librdkitCatch.a ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 1%] Built target EigenSolvers make -f Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/build.make Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/DependInfo.cmake "--color=" dictTestsCatch [ 1%] Built target testConcurrentQueue make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/build.make Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 1%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataStructs/ExplicitBitVect.cpp [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/catch_dict.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/RDGeneral/CMakeFiles/dictTestsCatch.dir/catch_dict.cpp.o -MF CMakeFiles/dictTestsCatch.dir/catch_dict.cpp.o.d -o CMakeFiles/dictTestsCatch.dir/catch_dict.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/catch_dict.cpp [ 1%] Linking CXX shared library ../../lib/libRDKitRDBoost.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDBoost && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDBoost.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/RDBoost.dir/link.d -Wl,-soname,libRDKitRDBoost.so.1 -o ../../lib/libRDKitRDBoost.so.1.2026.03.2 CMakeFiles/RDBoost.dir/Wrap.cpp.o ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDBoost && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../lib/libRDKitRDBoost.so.1 ../../lib/libRDKitRDBoost.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 1%] Built target RDBoost make -f Code/RDGeneral/CMakeFiles/logTestsCatch.dir/build.make Code/RDGeneral/CMakeFiles/logTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral/CMakeFiles/logTestsCatch.dir/DependInfo.cmake "--color=" logTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/logTestsCatch.dir/build.make Code/RDGeneral/CMakeFiles/logTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/logTestsCatch.dir/catch_logs.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/logTestsCatch.dir/catch_logs.cpp.o -MF CMakeFiles/logTestsCatch.dir/catch_logs.cpp.o.d -o CMakeFiles/logTestsCatch.dir/catch_logs.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/catch_logs.cpp [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/Utils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataStructs/Utils.cpp [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/base64.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataStructs/base64.cpp make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/RDBoost/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDBoost/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake "--color=" rdBase make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 2%] Building CXX object Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/RDBase.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDBoost/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdBase_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/Wrap/CMakeFiles/rdBase.dir/RDBase.cpp.o -MF CMakeFiles/rdBase.dir/RDBase.cpp.o.d -o CMakeFiles/rdBase.dir/RDBase.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/RDBoost/Wrap/RDBase.cpp [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitOps.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataStructs/BitOps.cpp [ 2%] Linking CXX executable dictTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/dictTestsCatch.dir/link.txt --verbose=1 [ 2%] Linking CXX executable testDict cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDict.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/dictTestsCatch.dir/link.d CMakeFiles/dictTestsCatch.dir/catch_dict.cpp.o -o dictTestsCatch librdkitCatch.a ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 2%] Built target dictTestsCatch make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Numerics /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake "--color=" testMatrices make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testDict.dir/link.d CMakeFiles/testDict.dir/testDict.cpp.o -o testDict librdkitCatch.a ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 2%] Building CXX object Code/Numerics/CMakeFiles/testMatrices.dir/testMatrices.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/CMakeFiles/testMatrices.dir/testMatrices.cpp.o -MF CMakeFiles/testMatrices.dir/testMatrices.cpp.o.d -o CMakeFiles/testMatrices.dir/testMatrices.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Numerics/testMatrices.cpp [ 2%] Built target testDict make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Catalogs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Catalogs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake "--color=" Catalogs make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 2%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/Catalog.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCatalogs_EXPORTS -DRDKIT_CATALOGS_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Catalogs/Catalog.cpp [ 2%] Linking CXX executable testRDValue cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRDValue.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testRDValue.dir/link.d CMakeFiles/testRDValue.dir/testRDValue.cpp.o -o testRDValue librdkitCatch.a ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 2%] Built target testRDValue make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Query /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Query /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Query/CMakeFiles/testQuery.dir/DependInfo.cmake "--color=" testQuery make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 2%] Building CXX object Code/Query/CMakeFiles/testQuery.dir/test.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Query && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Query/CMakeFiles/testQuery.dir/test.cpp.o -MF CMakeFiles/testQuery.dir/test.cpp.o.d -o CMakeFiles/testQuery.dir/test.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Query/test.cpp [ 2%] Linking CXX executable logTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/logTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/logTestsCatch.dir/link.d CMakeFiles/logTestsCatch.dir/catch_logs.cpp.o -o logTestsCatch librdkitCatch.a ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 2%] Built target logTestsCatch make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/DataManip/MetricMatrixCalc /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake "--color=" testMatCalc make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 2%] Building CXX object Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -MF CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o.d -o CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DataManip/MetricMatrixCalc/testMatCalc.cpp [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataStructs/DiscreteDistMat.cpp [ 2%] Linking CXX executable testMatCalc cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 2%] Built target testMatCalc [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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 CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o.d -o CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DataStructs/DiscreteValueVect.cpp [ 2%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogParams.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCatalogs_EXPORTS -DRDKIT_CATALOGS_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/CatalogParams.cpp.o -MF CMakeFiles/Catalogs.dir/CatalogParams.cpp.o.d -o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Catalogs/CatalogParams.cpp [ 2%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DCatalogs_EXPORTS -DRDKIT_CATALOGS_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/CatalogEntry.cpp.o -MF CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o.d -o CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Catalogs/CatalogEntry.cpp make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DependInfo.cmake "--color=" SimDivPickers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 3%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/SimDivPickers/DistPicker.cpp [ 4%] Linking CXX shared library ../../lib/libRDKitCatalogs.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Catalogs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Catalogs.dir/link.d -Wl,-soname,libRDKitCatalogs.so.1 -o ../../lib/libRDKitCatalogs.so.1.2026.03.2 CMakeFiles/Catalogs.dir/Catalog.cpp.o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../lib/libRDKitCatalogs.so.1 ../../lib/libRDKitCatalogs.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 4%] Built target Catalogs 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake "--color=" Clustering make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 4%] Building CXX object Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/Clustering.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ML/Cluster/Murtagh/Clustering.cpp [ 4%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/MaxMinPicker.cpp.o -MF CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o.d -o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/MaxMinPicker.cpp [ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/FPBReader.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/FPBReader.cpp.o -MF CMakeFiles/DataStructs.dir/FPBReader.cpp.o.d -o CMakeFiles/DataStructs.dir/FPBReader.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DataStructs/FPBReader.cpp [ 4%] Linking CXX executable testMatrices cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatrices.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testMatrices.dir/link.d CMakeFiles/testMatrices.dir/testMatrices.cpp.o -o testMatrices ../RDGeneral/librdkitCatch.a ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 4%] Built target testMatrices [ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/MultiFPBReader.cpp.o -MF CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o.d -o CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DataStructs/MultiFPBReader.cpp [ 4%] Linking CXX executable testQuery cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Query && /usr/bin/cmake -E cmake_link_script CMakeFiles/testQuery.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 4%] Built target testQuery [ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/RealValueVect.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DataStructs/CMakeFiles/DataStructs.dir/RealValueVect.cpp.o -MF CMakeFiles/DataStructs.dir/RealValueVect.cpp.o.d -o CMakeFiles/DataStructs.dir/RealValueVect.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DataStructs/RealValueVect.cpp [ 4%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/SimDivPickers/HierarchicalClusterPicker.cpp [ 4%] Linking CXX shared module ../../../../rdkit/ML/Cluster/Clustering.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/Clustering.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/Clustering.dir/link.d -o ../../../../rdkit/ML/Cluster/Clustering.so CMakeFiles/Clustering.dir/Clustering.cpp.o ../../../../lib/libRDKithc.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 4%] Built target Clustering [ 4%] Linking CXX shared library ../../lib/libRDKitSimDivPickers.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/SimDivPickers.dir/link.txt --verbose=1 [ 4%] Linking CXX shared library ../../lib/libRDKitDataStructs.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/DataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/SimDivPickers.dir/link.d -Wl,-soname,libRDKitSimDivPickers.so.1 -o ../../lib/libRDKitSimDivPickers.so.1.2026.03.2 CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o ../../lib/libRDKithc.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitSimDivPickers.so.1.2026.03.2 ../../lib/libRDKitSimDivPickers.so.1 ../../lib/libRDKitSimDivPickers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 4%] Built target SimDivPickers make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake "--color=" testSimDivPickers /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/DataStructs.dir/link.d -Wl,-soname,libRDKitDataStructs.so.1 -o ../../lib/libRDKitDataStructs.so.1.2026.03.2 CMakeFiles/DataStructs.dir/BitVect.cpp.o CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o CMakeFiles/DataStructs.dir/Utils.cpp.o CMakeFiles/DataStructs.dir/base64.cpp.o CMakeFiles/DataStructs.dir/BitOps.cpp.o CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o CMakeFiles/DataStructs.dir/FPBReader.cpp.o CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o CMakeFiles/DataStructs.dir/RealValueVect.cpp.o ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1 ../../lib/libRDKitDataStructs.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 4%] Building CXX object Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/SimDivPickers/testPickers.cpp [ 4%] Built target DataStructs make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/depend make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/depend make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/depend make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Geometry /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/CMakeFiles/RDGeometryLib.dir/DependInfo.cmake "--color=" RDGeometryLib make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/DataStructs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake "--color=" testFPB make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/DataStructs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake "--color=" testDataStructs make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/DataStructs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake "--color=" testMultiFPB make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/build make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 5%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/point.cpp.o [ 5%] Building CXX object Code/DataStructs/CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o [ 5%] Building CXX object Code/DataStructs/CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Geometry/point.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/DataStructs/testDatastructs.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/DataStructs/testMultiFPB.cpp [ 5%] Building CXX object Code/DataStructs/CMakeFiles/testFPB.dir/testFPB.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/DataStructs/testFPB.cpp [ 5%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Geometry/Transform2D.cpp [ 5%] Linking CXX executable testSimDivPickers cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSimDivPickers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testSimDivPickers.dir/link.d CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -o testSimDivPickers ../RDGeneral/librdkitCatch.a ../../lib/libRDKitSimDivPickers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKithc.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 5%] Built target testSimDivPickers make -f Code/DataStructs/CMakeFiles/catchDataStructs.dir/build.make Code/DataStructs/CMakeFiles/catchDataStructs.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/DataStructs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/CMakeFiles/catchDataStructs.dir/DependInfo.cmake "--color=" catchDataStructs make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 5%] Building CXX object Code/DataStructs/CMakeFiles/catchDataStructs.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/DataStructs/catch_tests.cpp [ 5%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Geometry/Transform3D.cpp [ 5%] Linking CXX executable catchDataStructs cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/catchDataStructs.dir/link.txt --verbose=1 [ 5%] Linking CXX executable testFPB cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/catchDataStructs.dir/link.d CMakeFiles/catchDataStructs.dir/catch_tests.cpp.o -o catchDataStructs ../RDGeneral/librdkitCatch.a ../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 5%] Built target catchDataStructs make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/DataStructs/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake "--color=" cDataStructs make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 5%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DataStructs.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataStructs/Wrap/DataStructs.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 5%] Built target testFPB [ 5%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Geometry/UniformGrid3D.cpp [ 5%] Linking CXX executable testMultiFPB cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultiFPB.dir/link.txt --verbose=1 [ 5%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataStructs/Wrap/DiscreteValueVect.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testMultiFPB.dir/link.d CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -o testMultiFPB ../RDGeneral/librdkitCatch.a ../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 5%] Built target testMultiFPB 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/DataManip/MetricMatrixCalc/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake "--color=" rdMetricMatrixCalc make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 5%] Building CXX object Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp [ 5%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformRealValueGrid3D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Geometry/UniformRealValueGrid3D.cpp [ 5%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataStructs/Wrap/SparseIntVect.cpp [ 5%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/RealValueVect.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/RealValueVect.cpp.o -MF CMakeFiles/cDataStructs.dir/RealValueVect.cpp.o.d -o CMakeFiles/cDataStructs.dir/RealValueVect.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DataStructs/Wrap/RealValueVect.cpp [ 5%] Linking CXX shared module ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMetricMatrixCalc.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMetricMatrixCalc.dir/link.d -o ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 5%] Built target rdMetricMatrixCalc make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/DependInfo.cmake "--color=" pickersTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 5%] Building CXX object Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/pickersTestsCatch.dir/catch_tests.cpp.o -MF CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/catch_tests.cpp [ 5%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -MF CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o.d -o CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Geometry/GridUtils.cpp [ 5%] Linking CXX shared library ../../lib/libRDKitRDGeometryLib.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeometryLib.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/RDGeometryLib.dir/link.d -Wl,-soname,libRDKitRDGeometryLib.so.1 -o ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 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.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1 ../../lib/libRDKitRDGeometryLib.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 5%] Built target RDGeometryLib [ 5%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o -MF CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o.d -o CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DataStructs/Wrap/wrap_SparseBV.cpp [ 5%] Linking CXX executable pickersTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/pickersTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/pickersTestsCatch.dir/link.d CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o -o pickersTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitSimDivPickers.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKithc.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 5%] Built target pickersTestsCatch make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake "--color=" rdSimDivPickers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 5%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdSimDivPickers_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/Wrap/CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o -MF CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o.d -o CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/Wrap/MaxMinPicker.cpp [ 5%] Linking CXX executable testDataStructs cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testDataStructs.dir/link.d CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -o testDataStructs ../RDGeneral/librdkitCatch.a ../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 5%] Built target testDataStructs [ 5%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataStructs/Wrap/wrap_ExplicitBV.cpp [ 6%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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_BitOps.cpp.o -MF CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o.d -o CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DataStructs/Wrap/wrap_BitOps.cpp [ 7%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdSimDivPickers_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/Wrap/CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o -MF CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o.d -o CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/Wrap/LeaderPicker.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ML/InfoTheory /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/InfoTheory /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake "--color=" InfoTheory make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 7%] Building CXX object Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/InfoTheory && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ML/InfoTheory/InfoBitRanker.cpp [ 7%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdSimDivPickers_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/Wrap/CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o -MF CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o.d -o CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp [ 7%] Linking CXX shared module ../../../rdkit/rdBase.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDBoost/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdBase.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdBase.dir/link.d -o ../../../rdkit/rdBase.so CMakeFiles/rdBase.dir/RDBase.cpp.o ../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 7%] Built target rdBase [ 7%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/DataStructs/Wrap/wrap_FPB.cpp [ 7%] Linking CXX shared library ../../../lib/libRDKitInfoTheory.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_link_script CMakeFiles/InfoTheory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/InfoTheory.dir/link.d -Wl,-soname,libRDKitInfoTheory.so.1 -o ../../../lib/libRDKitInfoTheory.so.1.2026.03.2 CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitInfoTheory.so.1.2026.03.2 ../../../lib/libRDKitInfoTheory.so.1 ../../../lib/libRDKitInfoTheory.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 7%] Built target InfoTheory [ 7%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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_Utils.cpp.o -MF CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o.d -o CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DataStructs/Wrap/wrap_Utils.cpp [ 7%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdSimDivPickers_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/Wrap/CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o -MF CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o.d -o CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ChemicalFeatures /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake "--color=" ChemicalFeatures make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 7%] Building CXX object Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ChemicalFeatures/FreeChemicalFeature.cpp make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake "--color=" GraphMol make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 7%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Atom.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Atom.cpp [ 7%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryAtom.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/QueryAtom.cpp [ 7%] Linking CXX shared library ../../lib/libRDKitChemicalFeatures.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ChemicalFeatures.dir/link.d -Wl,-soname,libRDKitChemicalFeatures.so.1 -o ../../lib/libRDKitChemicalFeatures.so.1.2026.03.2 CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitChemicalFeatures.so.1.2026.03.2 ../../lib/libRDKitChemicalFeatures.so.1 ../../lib/libRDKitChemicalFeatures.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 7%] Built target ChemicalFeatures 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Numerics/Alignment /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake "--color=" Alignment make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 7%] Building CXX object Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment && /usr/bin/c++ -DAlignment_EXPORTS -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Numerics/Alignment/AlignPoints.cpp [ 7%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryBond.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/QueryBond.cpp [ 7%] Linking CXX shared module ../../../rdkit/SimDivFilters/rdSimDivPickers.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSimDivPickers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdSimDivPickers.dir/link.d -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.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../lib/libRDKithc.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 7%] Built target rdSimDivPickers [ 7%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Bond.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Bond.cpp [ 7%] Linking CXX shared library ../../../lib/libRDKitAlignment.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/Alignment.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Alignment.dir/link.d -Wl,-soname,libRDKitAlignment.so.1 -o ../../../lib/libRDKitAlignment.so.1.2026.03.2 CMakeFiles/Alignment.dir/AlignPoints.cpp.o ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1 ../../../lib/libRDKitAlignment.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 7%] Built target Alignment make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Geometry /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake "--color=" testTransforms make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 7%] Building CXX object Code/Geometry/CMakeFiles/testTransforms.dir/testTransforms.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/Geometry/CMakeFiles/testTransforms.dir/testTransforms.cpp.o -MF CMakeFiles/testTransforms.dir/testTransforms.cpp.o.d -o CMakeFiles/testTransforms.dir/testTransforms.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Geometry/testTransforms.cpp [ 7%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolOps.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolOps.cpp [ 7%] Linking CXX shared module ../../../rdkit/DataStructs/cDataStructs.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/cDataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/cDataStructs.dir/link.d -o ../../../rdkit/DataStructs/cDataStructs.so CMakeFiles/cDataStructs.dir/DataStructs.cpp.o CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o CMakeFiles/cDataStructs.dir/RealValueVect.cpp.o CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 7%] Built target cDataStructs make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Geometry /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake "--color=" testGrid make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 7%] Building CXX object Code/Geometry/CMakeFiles/testGrid.dir/testGrid.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/Geometry/CMakeFiles/testGrid.dir/testGrid.cpp.o -MF CMakeFiles/testGrid.dir/testGrid.cpp.o.d -o CMakeFiles/testGrid.dir/testGrid.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Geometry/testGrid.cpp [ 7%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindRings.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FindRings.cpp [ 7%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ROMol.cpp [ 7%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/RWMol.cpp /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FindRings.cpp: In function ‘void RDKit::MolOps::findRingFamilies(const RDKit::ROMol&, bool, bool)’: /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FindRings.cpp:1218:36: warning: unused parameter ‘mol’ [-Wunused-parameter] 1218 | void findRingFamilies(const ROMol &mol, bool includeDativeBonds, | ~~~~~~~~~~~~~^~~ /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FindRings.cpp:1218:46: warning: unused parameter ‘includeDativeBonds’ [-Wunused-parameter] 1218 | void findRingFamilies(const ROMol &mol, bool includeDativeBonds, | ~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FindRings.cpp:1219:28: warning: unused parameter ‘includeHydrogenBonds’ [-Wunused-parameter] 1219 | bool includeHydrogenBonds) { | ~~~~~^~~~~~~~~~~~~~~~~~~~ [ 7%] Linking CXX executable testGrid cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGrid.dir/link.txt --verbose=1 [ 7%] Linking CXX executable testTransforms cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/testTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testGrid.dir/link.d CMakeFiles/testGrid.dir/testGrid.cpp.o -o testGrid ../RDGeneral/librdkitCatch.a ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 7%] Built target testGrid [ 7%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/PeriodicTable.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testTransforms.dir/link.d CMakeFiles/testTransforms.dir/testTransforms.cpp.o -o testTransforms ../RDGeneral/librdkitCatch.a ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 7%] Built target testTransforms make -f Code/Geometry/CMakeFiles/testRealValueGrid.dir/build.make Code/Geometry/CMakeFiles/testRealValueGrid.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Geometry /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/CMakeFiles/testRealValueGrid.dir/DependInfo.cmake "--color=" testRealValueGrid make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Geometry/CMakeFiles/testRealValueGrid.dir/build.make Code/Geometry/CMakeFiles/testRealValueGrid.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 7%] Building CXX object Code/Geometry/CMakeFiles/testRealValueGrid.dir/testRealValueGrid.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/Geometry/CMakeFiles/testRealValueGrid.dir/testRealValueGrid.cpp.o -MF CMakeFiles/testRealValueGrid.dir/testRealValueGrid.cpp.o.d -o CMakeFiles/testRealValueGrid.dir/testRealValueGrid.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Geometry/testRealValueGrid.cpp [ 8%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/atomic_data.cpp [ 8%] Linking CXX executable testRealValueGrid cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRealValueGrid.dir/link.txt --verbose=1 [ 8%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/QueryOps.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testRealValueGrid.dir/link.d CMakeFiles/testRealValueGrid.dir/testRealValueGrid.cpp.o -o testRealValueGrid ../RDGeneral/librdkitCatch.a ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/libCatch2.a -ldl /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 8%] Built target testRealValueGrid make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Geometry /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/DependInfo.cmake "--color=" geometryTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 8%] Building CXX object Code/Geometry/CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/Geometry/CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o -MF CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Geometry/catch_tests.cpp [ 8%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolPickler.cpp [ 8%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Canon.cpp make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Geometry/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake "--color=" rdGeometry make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 8%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/Point.cpp.o -MF CMakeFiles/rdGeometry.dir/Point.cpp.o.d -o CMakeFiles/rdGeometry.dir/Point.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Geometry/Wrap/Point.cpp [ 8%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/AtomIterators.cpp [ 8%] Linking CXX executable geometryTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/geometryTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/geometryTestsCatch.dir/link.d CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o -o geometryTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 8%] Built target geometryTestsCatch [ 9%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/UniformGrid3D.cpp.o -MF CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o.d -o CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Geometry/Wrap/UniformGrid3D.cpp [ 9%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/BondIterators.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/BondIterators.cpp make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Numerics /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake "--color=" testConrec make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 9%] Building CXX object Code/Numerics/CMakeFiles/testConrec.dir/testConrec.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/CMakeFiles/testConrec.dir/testConrec.cpp.o -MF CMakeFiles/testConrec.dir/testConrec.cpp.o.d -o CMakeFiles/testConrec.dir/testConrec.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Numerics/testConrec.cpp [ 9%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformRealValueGrid3D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Geometry/Wrap/UniformRealValueGrid3D.cpp [ 9%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Aromaticity.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Aromaticity.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Numerics/Alignment /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake "--color=" testAlignment make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 9%] Building CXX object Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/testAlignment.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/Numerics/Alignment/testAlignment.cpp [ 9%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Geometry/Wrap/rdGeometry.cpp [ 9%] Linking CXX executable testConrec cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics && /usr/bin/cmake -E cmake_link_script CMakeFiles/testConrec.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testConrec.dir/link.d CMakeFiles/testConrec.dir/testConrec.cpp.o -o testConrec ../RDGeneral/librdkitCatch.a ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 9%] Built target testConrec 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Numerics/Alignment/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake "--color=" rdAlignment make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 9%] Building CXX object Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Numerics/Alignment/Wrap/rdAlignment.cpp [ 9%] Linking CXX executable testAlignment cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAlignment.dir/link.txt --verbose=1 [ 9%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Kekulize.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Kekulize.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 9%] Built target testAlignment make -f Code/Features/CMakeFiles/testBaseFeatures.dir/build.make Code/Features/CMakeFiles/testBaseFeatures.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Features /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Features /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Features/CMakeFiles/testBaseFeatures.dir/DependInfo.cmake "--color=" testBaseFeatures make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Features/CMakeFiles/testBaseFeatures.dir/build.make Code/Features/CMakeFiles/testBaseFeatures.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 9%] Building CXX object Code/Features/CMakeFiles/testBaseFeatures.dir/testFeatures.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Features && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Features/CMakeFiles/testBaseFeatures.dir/testFeatures.cpp.o -MF CMakeFiles/testBaseFeatures.dir/testFeatures.cpp.o.d -o CMakeFiles/testBaseFeatures.dir/testFeatures.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Features/testFeatures.cpp [ 9%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ConjugHybrid.cpp [ 9%] Linking CXX shared module ../../../rdkit/Geometry/rdGeometry.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdGeometry.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdGeometry.dir/link.d -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.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 9%] Built target rdGeometry make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ML/InfoTheory/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake "--color=" rdInfoTheory make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 9%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdInfoTheory_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp [ 9%] Linking CXX shared module ../../../../rdkit/Numerics/rdAlignment.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdAlignment.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdAlignment.dir/link.d -o ../../../../rdkit/Numerics/rdAlignment.so CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 9%] Built target rdAlignment [ 9%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AddHs.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/AddHs.cpp [ 9%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Matrices.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Matrices.cpp [ 9%] Linking CXX executable testBaseFeatures cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Features && /usr/bin/cmake -E cmake_link_script CMakeFiles/testBaseFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testBaseFeatures.dir/link.d CMakeFiles/testBaseFeatures.dir/testFeatures.cpp.o -o testBaseFeatures ../RDGeneral/librdkitCatch.a ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 9%] Built target testBaseFeatures [ 9%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdInfoTheory_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/BitCorrMatGenerator.cpp.o -MF CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o.d -o CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ML/Data /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Data /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake "--color=" cQuantize make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 9%] Building CXX object Code/ML/Data/CMakeFiles/cQuantize.dir/cQuantize.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Data && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DcQuantize_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ML/Data/cQuantize.cpp [ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Chirality.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Chirality.cpp make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ChemicalFeatures /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake "--color=" testChemicalFeatures make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 10%] Building CXX object Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/ChemicalFeatures/testChemicalFeatures.cpp [ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RingInfo.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/RingInfo.cpp [ 10%] Linking CXX shared module ../../../rdkit/ML/Data/cQuantize.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/Data && /usr/bin/cmake -E cmake_link_script CMakeFiles/cQuantize.dir/link.txt --verbose=1 [ 10%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdInfoTheory_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/rdInfoTheory.cpp.o -MF CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o.d -o CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/cQuantize.dir/link.d -o ../../../rdkit/ML/Data/cQuantize.so CMakeFiles/cQuantize.dir/cQuantize.cpp.o ../../../lib/libRDKitInfoTheory.so.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 10%] Built target cQuantize [ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Conformer.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Conformer.cpp [ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Renumber.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Renumber.cpp [ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AdjustQuery.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/AdjustQuery.cpp [ 10%] Linking CXX executable testChemicalFeatures cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 10%] Built target testChemicalFeatures [ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Resonance.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Resonance.cpp [ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/StereoGroup.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/StereoGroup.cpp [ 10%] Linking CXX shared module ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdInfoTheory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdInfoTheory.dir/link.d -o ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o ../../../../lib/libRDKitInfoTheory.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 10%] Built target rdInfoTheory [ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/new_canon.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/new_canon.cpp [ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SubstanceGroup.cpp [ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindStereo.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FindStereo.cpp [ 11%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MonomerInfo.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MonomerInfo.cpp [ 11%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/NontetrahedralStereo.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/NontetrahedralStereo.cpp [ 11%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Atropisomers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Atropisomers.cpp [ 11%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/WedgeBonds.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/WedgeBonds.cpp [ 11%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolProps.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolProps.cpp [ 11%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Subset.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Subset.cpp.o -MF CMakeFiles/GraphMol.dir/Subset.cpp.o.d -o CMakeFiles/GraphMol.dir/Subset.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subset.cpp [ 11%] Linking CXX shared library ../../lib/libRDKitGraphMol.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/GraphMol.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/GraphMol.dir/link.d -Wl,-soname,libRDKitGraphMol.so.1 -o ../../lib/libRDKitGraphMol.so.1.2026.03.2 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 CMakeFiles/GraphMol.dir/Subset.cpp.o ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1 ../../lib/libRDKitGraphMol.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 11%] Built target GraphMol make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend 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/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake "--color=" CIPLabeler make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GenericGroups /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GenericGroups /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/DependInfo.cmake "--color=" GenericGroups make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake "--color=" MolTransforms make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/DependInfo.cmake "--color=" Subgraphs make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake "--color=" SmilesParse make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/PartialCharges /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake "--color=" PartialCharges make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/build.make Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/build make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 11%] Building CXX object Code/GraphMol/GenericGroups/CMakeFiles/GenericGroups.dir/GenericGroups.cpp.o [ 11%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o [ 11%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GenericGroups && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/GenericGroups/GenericGroups.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Subgraphs/Subgraphs.cpp [ 11%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPMol.cpp.o [ 11%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o [ 11%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolTransforms/MolTransforms.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/CIPMol.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o -MF CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o.d -o CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/PartialCharges/GasteigerCharges.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SmilesParse/SmilesParse.cpp [ 11%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/CIPLabeler.cpp [ 11%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/PartialCharges/GasteigerParams.cpp [ 11%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Subgraphs/SubgraphUtils.cpp [ 11%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SmilesParse/SmilesParseOps.cpp [ 11%] Linking CXX shared library ../../../lib/libRDKitMolTransforms.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolTransforms.dir/link.txt --verbose=1 [ 12%] Linking CXX shared library ../../../lib/libRDKitGenericGroups.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/GenericGroups.dir/link.d -Wl,-soname,libRDKitGenericGroups.so.1 -o ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 CMakeFiles/GenericGroups.dir/GenericGroups.cpp.o ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GenericGroups && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1 ../../../lib/libRDKitGenericGroups.so /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MolTransforms.dir/link.d -Wl,-soname,libRDKitMolTransforms.so.1 -o ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1 ../../../lib/libRDKitMolTransforms.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 12%] Built target GenericGroups 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake "--color=" Trajectory make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build [ 12%] Built target MolTransforms make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/molrangesTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/molrangesTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/molrangesTestsCatch.dir/DependInfo.cmake "--color=" molrangesTestsCatch [ 12%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/Trajectory.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Trajectory/Trajectory.cpp make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/molrangesTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/molrangesTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 13%] Building CXX object Code/GraphMol/CMakeFiles/molrangesTestsCatch.dir/catch_molranges.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/molrangesTestsCatch.dir/catch_molranges.cpp.o -MF CMakeFiles/molrangesTestsCatch.dir/catch_molranges.cpp.o.d -o CMakeFiles/molrangesTestsCatch.dir/catch_molranges.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/catch_molranges.cpp [ 14%] Linking CXX shared library ../../../lib/libRDKitPartialCharges.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_link_script CMakeFiles/PartialCharges.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/PartialCharges.dir/link.d -Wl,-soname,libRDKitPartialCharges.so.1 -o ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1 ../../../lib/libRDKitPartialCharges.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 14%] Built target PartialCharges [ 14%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Mancude.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/Mancude.cpp [ 14%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SmilesParse/SmilesWrite.cpp [ 14%] Linking CXX shared library ../../../lib/libRDKitSubgraphs.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Subgraphs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Subgraphs.dir/link.d -Wl,-soname,libRDKitSubgraphs.so.1 -o ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1 ../../../lib/libRDKitSubgraphs.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 14%] Built target Subgraphs [ 14%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Digraph.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/Digraph.cpp make -f Code/GraphMol/CMakeFiles/tableTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/tableTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/tableTestsCatch.dir/DependInfo.cmake "--color=" tableTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 14%] Building CXX object Code/GraphMol/CMakeFiles/tableTestsCatch.dir/catch_periodictable.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/catch_periodictable.cpp [ 14%] Linking CXX shared library ../../../lib/libRDKitTrajectory.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_link_script CMakeFiles/Trajectory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Trajectory.dir/link.d -Wl,-soname,libRDKitTrajectory.so.1 -o ../../../lib/libRDKitTrajectory.so.1.2026.03.2 CMakeFiles/Trajectory.dir/Trajectory.cpp.o ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1 ../../../lib/libRDKitTrajectory.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 14%] Built target Trajectory 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/PartialCharges/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/DependInfo.cmake "--color=" rdPartialCharges make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 14%] Building CXX object Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/PartialCharges/Wrap/rdPartialCharges.cpp [ 14%] Linking CXX executable molrangesTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/molrangesTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/molrangesTestsCatch.dir/link.d CMakeFiles/molrangesTestsCatch.dir/catch_molranges.cpp.o -o molrangesTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitGraphMol.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 14%] Built target molrangesTestsCatch [ 14%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SmilesParse/SmartsWrite.cpp [ 14%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Node.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/Node.cpp [ 14%] Linking CXX executable tableTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 14%] Built target tableTestsCatch 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolTransforms/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake "--color=" rdMolTransforms make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 14%] Building CXX object Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdMolTransforms_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Wrap/CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o -MF CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o.d -o CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolTransforms/Wrap/rdMolTransforms.cpp [ 15%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Edge.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/Edge.cpp make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake "--color=" ShapeHelpers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 15%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/ShapeEncoder.cpp.o -MF CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o.d -o CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ShapeHelpers/ShapeEncoder.cpp [ 15%] Linking CXX shared module ../../../../rdkit/Chem/rdPartialCharges.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdPartialCharges.dir/link.txt --verbose=1 [ 15%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Sort.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/Sort.cpp [ 15%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/configs/Configuration.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdPartialCharges.dir/link.d -o ../../../../rdkit/Chem/rdPartialCharges.so CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o ../../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 15%] Built target rdPartialCharges [ 15%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp [ 15%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/CXSmilesOps.cpp.o -MF CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o.d -o CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/CXSmilesOps.cpp [ 15%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ShapeHelpers/ShapeUtils.cpp [ 15%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp [ 15%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/AtropisomerBond.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/configs/AtropisomerBond.cpp make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake "--color=" MolCatalog make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 15%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolCatalog/MolCatalogEntry.cpp [ 15%] Linking CXX shared module ../../../../rdkit/Chem/rdMolTransforms.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolTransforms.dir/link.d -o ../../../../rdkit/Chem/rdMolTransforms.so CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 15%] Built target rdMolTransforms [ 15%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/rules/Rule1a.cpp [ 15%] Linking CXX shared library ../../../lib/libRDKitShapeHelpers.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ShapeHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ShapeHelpers.dir/link.d -Wl,-soname,libRDKitShapeHelpers.so.1 -o ../../../lib/libRDKitShapeHelpers.so.1.2026.03.2 CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitShapeHelpers.so.1.2026.03.2 ../../../lib/libRDKitShapeHelpers.so.1 ../../../lib/libRDKitShapeHelpers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 15%] Built target ShapeHelpers [ 15%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CanonicalizeStereoGroups.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SmilesParse/CanonicalizeStereoGroups.cpp [ 15%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolCatalog/MolCatalogParams.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/DependInfo.cmake "--color=" MolInterchange make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 15%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Parser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_JSON_STATIC_LINK -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolInterchange/Parser.cpp [ 15%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/rules/Rule1b.cpp [ 15%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/rules/Rule2.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/DependInfo.cmake "--color=" SLNParse make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 16%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNParse.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SLNParse/SLNParse.cpp [ 16%] Linking CXX shared library ../../../lib/libRDKitMolCatalog.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MolCatalog.dir/link.d -Wl,-soname,libRDKitMolCatalog.so.1 -o ../../../lib/libRDKitMolCatalog.so.1.2026.03.2 CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolCatalog.so.1.2026.03.2 ../../../lib/libRDKitMolCatalog.so.1 ../../../lib/libRDKitMolCatalog.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 16%] Built target MolCatalog [ 16%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Writer.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_JSON_STATIC_LINK -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolInterchange/Writer.cpp [ 16%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/rules/Rule3.cpp [ 17%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/rules/Rule4a.cpp [ 17%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/rules/Rule4b.cpp [ 17%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesJSONParsers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SmilesParse/SmilesJSONParsers.cpp [ 17%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4c.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/rules/Rule4c.cpp [ 18%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SmilesParse/smarts.tab.cpp [ 18%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Rule5.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule5.cpp [ 18%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/rules/Rule5New.cpp [ 18%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SLNParse/SLNAttribs.cpp [ 18%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SmilesParse/smiles.tab.cpp [ 18%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SmilesParse/lex.yysmarts.cpp [ 18%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Rule6.cpp.o -MF CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o.d -o CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule6.cpp [ 18%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/rules/SequenceRule.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake "--color=" rdqueries make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 18%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/rdqueries.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/rdqueries.cpp.o -MF CMakeFiles/rdqueries.dir/rdqueries.cpp.o.d -o CMakeFiles/rdqueries.dir/rdqueries.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/rdqueries.cpp [ 18%] Linking CXX shared library ../../../lib/libRDKitCIPLabeler.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/cmake -E cmake_link_script CMakeFiles/CIPLabeler.dir/link.txt --verbose=1 [ 18%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SmilesParse/lex.yysmiles.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/CIPLabeler.dir/link.d -Wl,-soname,libRDKitCIPLabeler.so.1 -o ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 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 CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o CMakeFiles/CIPLabeler.dir/configs/AtropisomerBond.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule4c.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1 ../../../lib/libRDKitCIPLabeler.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 18%] Built target CIPLabeler make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/DependInfo.cmake "--color=" rdtrajectory [ 18%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o -MF CMakeFiles/SLNParse.dir/sln.tab.cpp.o.d -o CMakeFiles/SLNParse.dir/sln.tab.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse/sln.tab.cpp make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 18%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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 CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/Trajectory.cpp [ 18%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o -MF CMakeFiles/SLNParse.dir/lex.yysln.cpp.o.d -o CMakeFiles/SLNParse.dir/lex.yysln.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse/lex.yysln.cpp [ 18%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/Queries.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Wrap/Queries.cpp [ 18%] Linking CXX shared library ../../../lib/libRDKitSmilesParse.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SmilesParse.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/SmilesParse.dir/link.d -Wl,-soname,libRDKitSmilesParse.so.1 -o ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 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.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1 ../../../lib/libRDKitSmilesParse.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 18%] Built target SmilesParse make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ChemicalFeatures/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake "--color=" rdChemicalFeatures make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 18%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ChemicalFeatures/Wrap/rdChemicalFeatures.cpp [ 18%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ChemicalFeatures/Wrap/FreeChemicalFeature.cpp [ 18%] Linking CXX shared library ../../../lib/libRDKitSLNParse.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SLNParse.dir/link.txt --verbose=1 [ 18%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Wrap/rdTrajectory.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/SLNParse.dir/link.d -Wl,-soname,libRDKitSLNParse.so.1 -o ../../../lib/libRDKitSLNParse.so.1.2026.03.2 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.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSLNParse.so.1.2026.03.2 ../../../lib/libRDKitSLNParse.so.1 ../../../lib/libRDKitSLNParse.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 18%] 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake "--color=" SubstructMatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 18%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Substruct/SubstructMatch.cpp [ 18%] Linking CXX shared library ../../../lib/libRDKitMolInterchange.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolInterchange.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MolInterchange.dir/link.d -Wl,-soname,libRDKitMolInterchange.so.1 -o ../../../lib/libRDKitMolInterchange.so.1.2026.03.2 CMakeFiles/MolInterchange.dir/Parser.cpp.o CMakeFiles/MolInterchange.dir/Writer.cpp.o ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolInterchange.so.1.2026.03.2 ../../../lib/libRDKitMolInterchange.so.1 ../../../lib/libRDKitMolInterchange.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 18%] Built target MolInterchange 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake "--color=" Optimizer make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 18%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Numerics/Optimizer/BFGSOpt.cpp [ 18%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/LinearSearch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/Numerics/Optimizer/LinearSearch.cpp [ 18%] Linking CXX shared module ../../../rdkit/Chem/rdtrajectory.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdtrajectory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdtrajectory.dir/link.d -o ../../../rdkit/Chem/rdtrajectory.so CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 18%] Built target rdtrajectory [ 18%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Substruct/SubstructUtils.cpp make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/DependInfo.cmake "--color=" graphmolcpTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 19%] Building CXX object Code/GraphMol/CMakeFiles/graphmolcpTest.dir/cptest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/cptest.cpp [ 19%] Linking CXX shared library ../../../lib/libRDKitOptimizer.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/Optimizer.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Optimizer.dir/link.d -Wl,-soname,libRDKitOptimizer.so.1 -o ../../../lib/libRDKitOptimizer.so.1.2026.03.2 CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o CMakeFiles/Optimizer.dir/LinearSearch.cpp.o ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1 ../../../lib/libRDKitOptimizer.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 19%] 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/DependInfo.cmake "--color=" graphmolIterTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 19%] Building CXX object Code/GraphMol/CMakeFiles/graphmolIterTest.dir/itertest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/itertest.cpp [ 19%] Linking CXX shared module ../../../rdkit/Chem/rdChemicalFeatures.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdChemicalFeatures.dir/link.d -o ../../../rdkit/Chem/rdChemicalFeatures.so CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o ../../../lib/libRDKitChemicalFeatures.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 19%] Built target rdChemicalFeatures make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/DependInfo.cmake "--color=" graphmolMemTest1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 19%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/memtest1.cpp [ 20%] Linking CXX shared module ../../../rdkit/Chem/rdqueries.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdqueries.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdqueries.dir/link.d -o ../../../rdkit/Chem/rdqueries.so CMakeFiles/rdqueries.dir/rdqueries.cpp.o CMakeFiles/rdqueries.dir/Queries.cpp.o ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 20%] Built target rdqueries make -f Code/GraphMol/CMakeFiles/queryTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/queryTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/queryTestsCatch.dir/DependInfo.cmake "--color=" queryTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 20%] Building CXX object Code/GraphMol/CMakeFiles/queryTestsCatch.dir/catch_queries.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/catch_queries.cpp [ 20%] Linking CXX executable graphmolcpTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 20%] Built target graphmolcpTest make -f Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/DependInfo.cmake "--color=" molbundleTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 20%] Building CXX object Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o -MF CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o.d -o CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/catch_molbundle.cpp [ 20%] Linking CXX executable graphmolIterTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolIterTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/graphmolIterTest.dir/link.d CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -o graphmolIterTest ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 20%] Built target graphmolIterTest make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake "--color=" smiTest2 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 20%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/test2.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/smiTest2.dir/test2.cpp.o -MF CMakeFiles/smiTest2.dir/test2.cpp.o.d -o CMakeFiles/smiTest2.dir/test2.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/test2.cpp make -f Code/GraphMol/SmilesParse/CMakeFiles/v2smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/v2smiTestCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/v2smiTestCatch.dir/DependInfo.cmake "--color=" v2smiTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/v2smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/v2smiTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 20%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/v2smiTestCatch.dir/v2catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/v2smiTestCatch.dir/v2catch_tests.cpp.o -MF CMakeFiles/v2smiTestCatch.dir/v2catch_tests.cpp.o.d -o CMakeFiles/v2smiTestCatch.dir/v2catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/v2catch_tests.cpp [ 20%] Linking CXX executable graphmolMemTest1 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolMemTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/graphmolMemTest1.dir/link.d CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o -o graphmolMemTest1 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 20%] Built target graphmolMemTest1 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/DependInfo.cmake "--color=" testSubgraphs1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 20%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/testSubgraphs1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/testSubgraphs1.cpp.o -MF CMakeFiles/testSubgraphs1.dir/testSubgraphs1.cpp.o.d -o CMakeFiles/testSubgraphs1.dir/testSubgraphs1.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subgraphs/testSubgraphs1.cpp [ 20%] Linking CXX shared library ../../../lib/libRDKitSubstructMatch.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/SubstructMatch.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/SubstructMatch.dir/link.d -Wl,-soname,libRDKitSubstructMatch.so.1 -o ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1 ../../../lib/libRDKitSubstructMatch.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 20%] Built target SubstructMatch 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/DependInfo.cmake "--color=" testSubgraphs2 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 20%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/testSubgraphs2.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testSubgraphs2.cpp.o -MF CMakeFiles/testSubgraphs2.dir/testSubgraphs2.cpp.o.d -o CMakeFiles/testSubgraphs2.dir/testSubgraphs2.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subgraphs/testSubgraphs2.cpp [ 20%] Linking CXX executable smiTest2 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTest2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/smiTest2.dir/link.d CMakeFiles/smiTest2.dir/test2.cpp.o -o smiTest2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 20%] Built target smiTest2 make -f Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/DependInfo.cmake "--color=" subgraphsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 20%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/subgraphsCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/subgraphsCatch.dir/catch_tests.cpp.o -MF CMakeFiles/subgraphsCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/subgraphsCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subgraphs/catch_tests.cpp [ 21%] Linking CXX executable queryTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/queryTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/queryTestsCatch.dir/link.d CMakeFiles/queryTestsCatch.dir/catch_queries.cpp.o -o queryTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 21%] Built target queryTestsCatch make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/DependInfo.cmake "--color=" FragCatalog make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 21%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/FragCatalogUtils.cpp.o -MF CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o.d -o CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/FragCatalogUtils.cpp [ 22%] Linking CXX executable v2smiTestCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/v2smiTestCatch.dir/link.txt --verbose=1 [ 22%] Linking CXX executable molbundleTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/molbundleTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/v2smiTestCatch.dir/link.d CMakeFiles/v2smiTestCatch.dir/v2catch_tests.cpp.o -o v2smiTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 22%] Built target v2smiTestCatch 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/PartialCharges /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/DependInfo.cmake "--color=" testPartialCharges make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 22%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/PartialCharges/test1.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/molbundleTestsCatch.dir/link.d CMakeFiles/molbundleTestsCatch.dir/catch_molbundle.cpp.o -o molbundleTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 22%] Built target molbundleTestsCatch 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/DependInfo.cmake "--color=" MolChemicalFeatures make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 22%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/MolChemicalFeature.cpp.o -MF CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o.d -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.cpp [ 23%] Linking CXX executable subgraphsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/subgraphsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/subgraphsCatch.dir/link.d CMakeFiles/subgraphsCatch.dir/catch_tests.cpp.o -o subgraphsCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 23%] Built target subgraphsCatch make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ShapeHelpers/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake "--color=" rdShapeHelpers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 23%] Building CXX object Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp [ 23%] Linking CXX executable testSubgraphs1 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testSubgraphs1.cpp.o -o testSubgraphs1 ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 23%] Built target testSubgraphs1 [ 23%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/FragCatGenerator.cpp.o -MF CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o.d -o CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/FragCatGenerator.cpp [ 23%] Linking CXX executable testSubgraphs2 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubgraphs2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testSubgraphs2.dir/link.d CMakeFiles/testSubgraphs2.dir/testSubgraphs2.cpp.o -o testSubgraphs2 ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 23%] Built target testSubgraphs2 [ 24%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.cpp [ 24%] Linking CXX executable testPartialCharges cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_link_script CMakeFiles/testPartialCharges.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testPartialCharges.dir/link.d CMakeFiles/testPartialCharges.dir/test1.cpp.o -o testPartialCharges ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 24%] Built target testPartialCharges [ 24%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FragCatalog/FragCatalogEntry.cpp [ 24%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.cpp [ 25%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FragCatalog/FragCatParams.cpp [ 25%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp [ 25%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FragCatalog/FragFPGenerator.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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolCatalog/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake "--color=" rdMolCatalog make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 25%] Building CXX object Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdMolCatalog_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.cpp [ 25%] Linking CXX shared module ../../../../rdkit/Chem/rdShapeHelpers.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdShapeHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdShapeHelpers.dir/link.d -o ../../../../rdkit/Chem/rdShapeHelpers.so CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o ../../../../lib/libRDKitShapeHelpers.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 25%] Built target rdShapeHelpers make -f Code/GraphMol/GaussianShape/CMakeFiles/GaussianShape.dir/build.make Code/GraphMol/GaussianShape/CMakeFiles/GaussianShape.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape/CMakeFiles/GaussianShape.dir/DependInfo.cmake "--color=" GaussianShape make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/GaussianShape/CMakeFiles/GaussianShape.dir/build.make Code/GraphMol/GaussianShape/CMakeFiles/GaussianShape.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 25%] Building CXX object Code/GraphMol/GaussianShape/CMakeFiles/GaussianShape.dir/GaussianShape.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGaussianShape_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GAUSSIANSHAPE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/GaussianShape/CMakeFiles/GaussianShape.dir/GaussianShape.cpp.o -MF CMakeFiles/GaussianShape.dir/GaussianShape.cpp.o.d -o CMakeFiles/GaussianShape.dir/GaussianShape.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/GaussianShape.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/DependInfo.cmake "--color=" rdCIPLabeler make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 25%] Building CXX object Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/CIPLabeler/Wrap/rdCIPLabeler.cpp [ 25%] Building CXX object Code/GraphMol/GaussianShape/CMakeFiles/GaussianShape.dir/ShapeInput.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGaussianShape_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GAUSSIANSHAPE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/GaussianShape/CMakeFiles/GaussianShape.dir/ShapeInput.cpp.o -MF CMakeFiles/GaussianShape.dir/ShapeInput.cpp.o.d -o CMakeFiles/GaussianShape.dir/ShapeInput.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/ShapeInput.cpp [ 25%] Linking CXX shared library ../../../lib/libRDKitFragCatalog.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FragCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/FragCatalog.dir/link.d -Wl,-soname,libRDKitFragCatalog.so.1 -o ../../../lib/libRDKitFragCatalog.so.1.2026.03.2 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.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFragCatalog.so.1.2026.03.2 ../../../lib/libRDKitFragCatalog.so.1 ../../../lib/libRDKitFragCatalog.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 25%] Built target FragCatalog 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake "--color=" ReducedGraphs make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 25%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ReducedGraphs/ReducedGraphs.cpp [ 25%] Linking CXX shared library ../../../lib/libRDKitMolChemicalFeatures.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MolChemicalFeatures.dir/link.d -Wl,-soname,libRDKitMolChemicalFeatures.so.1 -o ../../../lib/libRDKitMolChemicalFeatures.so.1.2026.03.2 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.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolChemicalFeatures.so.1.2026.03.2 ../../../lib/libRDKitMolChemicalFeatures.so.1 ../../../lib/libRDKitMolChemicalFeatures.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 25%] Built target MolChemicalFeatures [ 25%] Building CXX object Code/GraphMol/GaussianShape/CMakeFiles/GaussianShape.dir/SingleConformerAlignment.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DGaussianShape_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GAUSSIANSHAPE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/GaussianShape/CMakeFiles/GaussianShape.dir/SingleConformerAlignment.cpp.o -MF CMakeFiles/GaussianShape.dir/SingleConformerAlignment.cpp.o.d -o CMakeFiles/GaussianShape.dir/SingleConformerAlignment.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/SingleConformerAlignment.cpp [ 25%] Linking CXX shared module ../../../../rdkit/Chem/rdCIPLabeler.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdCIPLabeler.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdCIPLabeler.dir/link.d -o ../../../../rdkit/Chem/rdCIPLabeler.so CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 25%] Built target rdCIPLabeler 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInterchange/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake "--color=" rdMolInterchange make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 25%] Building CXX object Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolInterchange/Wrap/rdMolInterchange.cpp [ 25%] Linking CXX shared module ../../../../rdkit/Chem/rdMolCatalog.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolCatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolCatalog.dir/link.d -o ../../../../rdkit/Chem/rdMolCatalog.so CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o ../../../../lib/libRDKitMolCatalog.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 25%] Built target rdMolCatalog 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake "--color=" testSLNParse make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 26%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/test.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/SLNParse/test.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/DependInfo.cmake "--color=" rdSLNParse make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 26%] Building CXX object Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SLNParse/Wrap/rdSLNParse.cpp [ 26%] Linking CXX shared library ../../../lib/libRDKitReducedGraphs.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/ReducedGraphs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ReducedGraphs.dir/link.d -Wl,-soname,libRDKitReducedGraphs.so.1 -o ../../../lib/libRDKitReducedGraphs.so.1.2026.03.2 CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitReducedGraphs.so.1.2026.03.2 ../../../lib/libRDKitReducedGraphs.so.1 ../../../lib/libRDKitReducedGraphs.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Built target ReducedGraphs 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake "--color=" Abbreviations make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 26%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DAbbreviations_EXPORTS -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Abbreviations/Abbreviations.cpp [ 26%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DAbbreviations_EXPORTS -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Abbreviations/AbbreviationsUtils.cpp [ 26%] Linking CXX shared library ../../../lib/libRDKitGaussianShape.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape && /usr/bin/cmake -E cmake_link_script CMakeFiles/GaussianShape.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/GaussianShape.dir/link.d -Wl,-soname,libRDKitGaussianShape.so.1 -o ../../../lib/libRDKitGaussianShape.so.1.2026.03.2 CMakeFiles/GaussianShape.dir/GaussianShape.cpp.o CMakeFiles/GaussianShape.dir/ShapeInput.cpp.o CMakeFiles/GaussianShape.dir/SingleConformerAlignment.cpp.o ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitGaussianShape.so.1.2026.03.2 ../../../lib/libRDKitGaussianShape.so.1 ../../../lib/libRDKitGaussianShape.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Built target GaussianShape 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake "--color=" MolAlign make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolAlign_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/MolAlign.dir/AlignMolecules.cpp.o -MF CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o.d -o CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign/AlignMolecules.cpp [ 26%] Linking CXX shared module ../../../../rdkit/Chem/rdMolInterchange.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolInterchange.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolInterchange.dir/link.d -o ../../../../rdkit/Chem/rdMolInterchange.so CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o ../../../../lib/libRDKitMolInterchange.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Built target rdMolInterchange make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/DependInfo.cmake "--color=" Fingerprints make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Fingerprints/Fingerprints.cpp [ 26%] Linking CXX shared module ../../../../rdkit/Chem/rdSLNParse.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSLNParse.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdSLNParse.dir/link.d -o ../../../../rdkit/Chem/rdSLNParse.so CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o ../../../../lib/libRDKitSLNParse.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Built target rdSLNParse 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/DependInfo.cmake "--color=" testOptimizer make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/Numerics/Optimizer/testOptimizer.cpp [ 26%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/PatternFingerprints.cpp.o -MF CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o.d -o CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/PatternFingerprints.cpp [ 26%] Linking CXX shared library ../../../lib/libRDKitAbbreviations.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/cmake -E cmake_link_script CMakeFiles/Abbreviations.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Abbreviations.dir/link.d -Wl,-soname,libRDKitAbbreviations.so.1 -o ../../../lib/libRDKitAbbreviations.so.1.2026.03.2 CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitAbbreviations.so.1.2026.03.2 ../../../lib/libRDKitAbbreviations.so.1 ../../../lib/libRDKitAbbreviations.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ForceField /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake "--color=" ForceField make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 26%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/ForceField.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/ForceField.cpp [ 26%] Linking CXX executable testOptimizer cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/testOptimizer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Built target testOptimizer [ 26%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/FiniteDifference.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/FiniteDifference.cpp.o -MF CMakeFiles/ForceField.dir/FiniteDifference.cpp.o.d -o CMakeFiles/ForceField.dir/FiniteDifference.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ForceField/FiniteDifference.cpp [ 26%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o -MF CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o.d -o CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MorganFingerprints.cpp [ 26%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/AngleConstraint.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/AngleConstraint.cpp.o -MF CMakeFiles/ForceField.dir/AngleConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/AngleConstraint.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ForceField/AngleConstraint.cpp make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/DependInfo.cmake "--color=" graphmolqueryTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 26%] Building CXX object Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/querytest.cpp [ 26%] Linking CXX shared library ../../../lib/libRDKitMolAlign.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolAlign.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MolAlign.dir/link.d -Wl,-soname,libRDKitMolAlign.so.1 -o ../../../lib/libRDKitMolAlign.so.1.2026.03.2 CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1 ../../../lib/libRDKitMolAlign.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Built target MolAlign [ 26%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/AngleConstraints.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/AngleConstraints.cpp.o -MF CMakeFiles/ForceField.dir/AngleConstraints.cpp.o.d -o CMakeFiles/ForceField.dir/AngleConstraints.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ForceField/AngleConstraints.cpp [ 26%] Linking CXX executable testSLNParse cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSLNParse.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testSLNParse.dir/link.d CMakeFiles/testSLNParse.dir/test.cpp.o -o testSLNParse ../../../lib/libRDKitSLNParse.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Built target testSLNParse make -f Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/DependInfo.cmake "--color=" moliteratorTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Building CXX object Code/GraphMol/CMakeFiles/moliteratorTestsCatch.dir/catch_moliterators.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/catch_moliterators.cpp [ 26%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/AtomPairs.cpp.o -MF CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o.d -o CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/AtomPairs.cpp make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/DependInfo.cmake "--color=" FilterCatalog make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/Filters.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FilterCatalog/Filters.cpp [ 26%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/DistanceConstraint.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/DistanceConstraint.cpp.o -MF CMakeFiles/ForceField.dir/DistanceConstraint.cpp.o.d -o CMakeFiles/ForceField.dir/DistanceConstraint.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ForceField/DistanceConstraint.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/DependInfo.cmake "--color=" smaTest1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/smatest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/smaTest1.dir/smatest.cpp.o -MF CMakeFiles/smaTest1.dir/smatest.cpp.o.d -o CMakeFiles/smaTest1.dir/smatest.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/smatest.cpp [ 26%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/DistanceConstraints.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/DistanceConstraints.cpp.o -MF CMakeFiles/ForceField.dir/DistanceConstraints.cpp.o.d -o CMakeFiles/ForceField.dir/DistanceConstraints.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ForceField/DistanceConstraints.cpp [ 26%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o -MF CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o.d -o CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FilterCatalog.cpp [ 26%] Linking CXX executable moliteratorTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 ../RDGeneral/librdkitCatch.a ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 26%] Built target moliteratorTestsCatch [ 26%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FilterCatalogEntry.cpp [ 26%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MACCS.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Fingerprints/MACCS.cpp [ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/PositionConstraint.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/PositionConstraint.cpp [ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/TorsionConstraint.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/TorsionConstraint.cpp [ 27%] Linking CXX executable graphmolqueryTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 27%] Built target graphmolqueryTest 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake "--color=" rdMolChemicalFeatures make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 27%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolChemicalFeatures/Wrap/rdMolChemicalFeatures.cpp [ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/UFF/AngleBend.cpp [ 27%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MHFP.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Fingerprints/MHFP.cpp [ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/UFF/BondStretch.cpp [ 28%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o -MF CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o.d -o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp [ 28%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogRunner.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/FilterCatalogRunner.cpp.o -MF CMakeFiles/FilterCatalog.dir/FilterCatalogRunner.cpp.o.d -o CMakeFiles/FilterCatalog.dir/FilterCatalogRunner.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FilterCatalogRunner.cpp make -f Code/GraphMol/GaussianShape/Wrap/CMakeFiles/rdGaussianShape.dir/build.make Code/GraphMol/GaussianShape/Wrap/CMakeFiles/rdGaussianShape.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape/Wrap/CMakeFiles/rdGaussianShape.dir/DependInfo.cmake "--color=" rdGaussianShape make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/GaussianShape/Wrap/CMakeFiles/rdGaussianShape.dir/build.make Code/GraphMol/GaussianShape/Wrap/CMakeFiles/rdGaussianShape.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 28%] Building CXX object Code/GraphMol/GaussianShape/Wrap/CMakeFiles/rdGaussianShape.dir/rdGaussianShape.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdGaussianShape_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/GaussianShape/Wrap/CMakeFiles/rdGaussianShape.dir/rdGaussianShape.cpp.o -MF CMakeFiles/rdGaussianShape.dir/rdGaussianShape.cpp.o.d -o CMakeFiles/rdGaussianShape.dir/rdGaussianShape.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/Wrap/rdGaussianShape.cpp [ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/UFF/Nonbonded.cpp [ 28%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Fingerprints/FingerprintGenerator.cpp [ 29%] Linking CXX executable smaTest1 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 29%] Built target smaTest1 [ 29%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/MolChemicalFeatureFactory.cpp.o -MF CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o.d -o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeatureFactory.cpp [ 29%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/UFF/Inversion.cpp [ 29%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FilterCatalog/FilterMatchers.cpp [ 29%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp [ 29%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Inversions.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/UFF/Inversions.cpp [ 29%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/UFF/TorsionAngle.cpp [ 29%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp [ 30%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/FunctionalGroupHierarchy.cpp.o -MF CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o.d -o CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.cpp [ 30%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Params.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/Params.cpp.o -MF CMakeFiles/ForceField.dir/UFF/Params.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/Params.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Params.cpp [ 30%] Linking CXX shared module ../../../../rdkit/Chem/rdGaussianShape.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdGaussianShape.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdGaussianShape.dir/link.d -o ../../../../rdkit/Chem/rdGaussianShape.so CMakeFiles/rdGaussianShape.dir/rdGaussianShape.cpp.o ../../../../lib/libRDKitGaussianShape.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 30%] Built target rdGaussianShape 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake "--color=" testReducedGraphs make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 30%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/test1.cpp.o -MF CMakeFiles/testReducedGraphs.dir/test1.cpp.o.d -o CMakeFiles/testReducedGraphs.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ReducedGraphs/test1.cpp [ 30%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Utils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/UFF/Utils.cpp.o -MF CMakeFiles/ForceField.dir/UFF/Utils.cpp.o.d -o CMakeFiles/ForceField.dir/UFF/Utils.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Utils.cpp [ 30%] Linking CXX shared module ../../../../rdkit/Chem/rdMolChemicalFeatures.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolChemicalFeatures.dir/link.d -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 ../../../../lib/libRDKitMolChemicalFeatures.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 30%] Built target rdMolChemicalFeatures [ 31%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Fingerprints/MorganGenerator.cpp make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ReducedGraphs/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake "--color=" rdReducedGraphs make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 31%] Building CXX object Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdReducedGraphs_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o -MF CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o.d -o CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ReducedGraphs/Wrap/rdReducedGraphs.cpp [ 32%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/MMFF/AngleBend.cpp [ 32%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/RDKitFPGenerator.cpp.o -MF CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o.d -o CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp [ 32%] Linking CXX executable testReducedGraphs cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReducedGraphs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testReducedGraphs.dir/link.d CMakeFiles/testReducedGraphs.dir/test1.cpp.o -o testReducedGraphs ../../../lib/libRDKitReducedGraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 32%] Linking CXX shared library ../../../lib/libRDKitFilterCatalog.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FilterCatalog.dir/link.txt --verbose=1 [ 32%] Built target testReducedGraphs make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Abbreviations/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/DependInfo.cmake "--color=" rdAbbreviations make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 32%] Building CXX object Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdAbbreviations_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Wrap/CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o -MF CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o.d -o CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Abbreviations/Wrap/rdAbbreviations.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/FilterCatalog.dir/link.d -Wl,-soname,libRDKitFilterCatalog.so.1 -o ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 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.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1 ../../../lib/libRDKitFilterCatalog.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 32%] Built target FilterCatalog [ 32%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/BondStretch.cpp [ 32%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/FingerprintUtil.cpp.o -MF CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o.d -o CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/FingerprintUtil.cpp [ 32%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/ForceField/CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/StretchBend.cpp [ 32%] Linking CXX shared module ../../../../rdkit/Chem/rdReducedGraphs.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdReducedGraphs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdReducedGraphs.dir/link.d -o ../../../../rdkit/Chem/rdReducedGraphs.so CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o ../../../../lib/libRDKitReducedGraphs.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 32%] Built target rdReducedGraphs make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake "--color=" Depictor make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 32%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/RDDepictor.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/RDDepictor.cpp.o -MF CMakeFiles/Depictor.dir/RDDepictor.cpp.o.d -o CMakeFiles/Depictor.dir/RDDepictor.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/RDDepictor.cpp [ 32%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/OopBend.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/OopBend.cpp [ 32%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/TopologicalTorsionGenerator.cpp.o -MF CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o.d -o CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.cpp make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/External/CoordGen/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/CoordGen/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake "--color=" rdCoordGen make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 32%] Building CXX object External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/CoordGen/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdCoordGen_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -MF CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o.d -o CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -c /build/reproducible-path/rdkit-202603.2/External/CoordGen/Wrap/rdCoordGen.cpp [ 32%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Depictor/EmbeddedFrag.cpp [ 32%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/MMFF/TorsionAngle.cpp [ 32%] Linking CXX shared module ../../../../rdkit/Chem/rdAbbreviations.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdAbbreviations.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdAbbreviations.dir/link.d -o ../../../../rdkit/Chem/rdAbbreviations.so CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o ../../../../lib/libRDKitAbbreviations.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 32%] Built target rdAbbreviations make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/DependInfo.cmake "--color=" rdfiltercatalog make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 32%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfiltercatalog_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o -MF CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o.d -o CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/Wrap/rdfiltercatalog.cpp [ 32%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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/Nonbonded.cpp.o -MF CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o.d -o CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/Nonbonded.cpp [ 32%] Linking CXX shared library ../../../lib/libRDKitFingerprints.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/Fingerprints.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Fingerprints.dir/link.d -Wl,-soname,libRDKitFingerprints.so.1 -o ../../../lib/libRDKitFingerprints.so.1.2026.03.2 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.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1 ../../../lib/libRDKitFingerprints.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 32%] Built target Fingerprints [ 33%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DepictUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/DepictUtils.cpp.o -MF CMakeFiles/Depictor.dir/DepictUtils.cpp.o.d -o CMakeFiles/Depictor.dir/DepictUtils.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/DepictUtils.cpp [ 33%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfiltercatalog_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o -MF CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o.d -o CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp [ 33%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/Templates.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Depictor/Templates.cpp [ 33%] Linking CXX shared module ../../../rdkit/Chem/rdCoordGen.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/CoordGen/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdCoordGen.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdCoordGen.dir/link.d -o ../../../rdkit/Chem/rdCoordGen.so CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 33%] Built target rdCoordGen make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake "--color=" rdFingerprintGenerator make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 33%] Building CXX object Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdFingerprintGenerator_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o -MF CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o.d -o CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp [ 33%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Params.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/MMFF/Params.cpp make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/DependInfo.cmake "--color=" rdMHFPFingerprint make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 33%] Building CXX object Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdMHFPFingerprint_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp [ 33%] Linking CXX shared library ../../../lib/libRDKitDepictor.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/Depictor.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Depictor.dir/link.d -Wl,-soname,libRDKitDepictor.so.1 -o ../../../lib/libRDKitDepictor.so.1.2026.03.2 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/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1 ../../../lib/libRDKitDepictor.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 33%] 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[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/External/INCHI-API /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/INCHI-API /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/INCHI-API/CMakeFiles/RDInchiLib.dir/DependInfo.cmake "--color=" RDInchiLib make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake "--color=" ChemTransforms make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f External/INCHI-API/CMakeFiles/RDInchiLib.dir/build.make External/INCHI-API/CMakeFiles/RDInchiLib.dir/build 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-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 33%] Building CXX object External/INCHI-API/CMakeFiles/RDInchiLib.dir/inchi.cpp.o [ 33%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/INCHI-API && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=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-202603.2/External/INCHI-API/inchi.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ChemTransforms/ChemTransforms.cpp [ 33%] Linking CXX shared library ../../lib/libRDKitForceField.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceField.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ForceField.dir/link.d -Wl,-soname,libRDKitForceField.so.1 -o ../../lib/libRDKitForceField.so.1.2026.03.2 CMakeFiles/ForceField.dir/ForceField.cpp.o CMakeFiles/ForceField.dir/FiniteDifference.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.1.2026.03.2 ../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitForceField.so.1.2026.03.2 ../../lib/libRDKitForceField.so.1 ../../lib/libRDKitForceField.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 33%] Built target ForceField 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake "--color=" rdDepictor make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 33%] Building CXX object Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp In file included from /usr/include/c++/15/string:56, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, 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-202603.2/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp:11: 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:500:30, 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:598:65, 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-202603.2/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; | ^~~~ 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())(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 33%] Linking CXX shared library ../../lib/libRDKitRDInchiLib.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/INCHI-API && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDInchiLib.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/RDInchiLib.dir/link.d -Wl,-soname,libRDKitRDInchiLib.so.1 -o ../../lib/libRDKitRDInchiLib.so.1.2026.03.2 CMakeFiles/RDInchiLib.dir/inchi.cpp.o /usr/lib/x86_64-linux-gnu/libinchi.so ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/INCHI-API && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDInchiLib.so.1.2026.03.2 ../../lib/libRDKitRDInchiLib.so.1 ../../lib/libRDKitRDInchiLib.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 33%] Built target RDInchiLib [ 33%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ChemTransforms/MolFragmenter.cpp [ 33%] Linking CXX shared module ../../../../rdkit/Chem/rdDepictor.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDepictor.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdDepictor.dir/link.d -o ../../../../rdkit/Chem/rdDepictor.so CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o ../../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 33%] Built target rdDepictor make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake "--color=" MolHash make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 33%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/hashfunctions.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolHash/hashfunctions.cpp [ 34%] Linking CXX shared module ../../../../rdkit/Chem/rdFingerprintGenerator.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFingerprintGenerator.dir/link.txt --verbose=1 [ 35%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolFragmenterJSONParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ChemTransforms/MolFragmenterJSONParser.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdFingerprintGenerator.dir/link.d -o ../../../../rdkit/Chem/rdFingerprintGenerator.so CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 35%] Built target rdFingerprintGenerator [ 35%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/normalize.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolHash/normalize.cpp [ 35%] Linking CXX shared module ../../../../rdkit/Chem/rdMHFPFingerprint.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMHFPFingerprint.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMHFPFingerprint.dir/link.d -o ../../../../rdkit/Chem/rdMHFPFingerprint.so CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 35%] Built target rdMHFPFingerprint 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/External/INCHI-API/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/INCHI-API/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/DependInfo.cmake "--color=" rdinchi make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 35%] Building CXX object External/INCHI-API/Wrap/CMakeFiles/rdinchi.dir/pyInchi.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/INCHI-API/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=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-202603.2/External/INCHI-API/Wrap/pyInchi.cpp [ 35%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolZip.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/MolZip.cpp.o -MF CMakeFiles/ChemTransforms.dir/MolZip.cpp.o.d -o CMakeFiles/ChemTransforms.dir/MolZip.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms/MolZip.cpp [ 35%] Linking CXX shared module ../../../rdkit/Chem/rdinchi.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/INCHI-API/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdinchi.dir/link.txt --verbose=1 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake "--color=" ForceFieldHelpers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 35%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdinchi.dir/link.d -o ../../../rdkit/Chem/rdinchi.so CMakeFiles/rdinchi.dir/pyInchi.cpp.o ../../../lib/libRDKitRDInchiLib.so.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libinchi.so ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 35%] Built target rdinchi [ 35%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ForceFieldHelpers/UFF/Builder.cpp [ 35%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.cpp [ 35%] Linking CXX shared library ../../../lib/libRDKitMolHash.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolHash.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MolHash.dir/link.d -Wl,-soname,libRDKitMolHash.so.1 -o ../../../lib/libRDKitMolHash.so.1.2026.03.2 CMakeFiles/MolHash.dir/hashfunctions.cpp.o CMakeFiles/MolHash.dir/normalize.cpp.o ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolHash.so.1.2026.03.2 ../../../lib/libRDKitMolHash.so.1 ../../../lib/libRDKitMolHash.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 35%] Built target MolHash 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolHash/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake "--color=" rdMolHash make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 35%] Building CXX object Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolHash_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolHash/Wrap/rdMolHash.cpp [ 35%] Linking CXX shared module ../../../../rdkit/Chem/rdfiltercatalog.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdfiltercatalog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdfiltercatalog.dir/link.d -o ../../../../rdkit/Chem/rdfiltercatalog.so CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o ../../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 35%] Built target rdfiltercatalog [ 36%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.cpp [ 36%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/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-202603.2/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.cpp [ 36%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.cpp [ 37%] Linking CXX shared module ../../../../rdkit/Chem/rdMolHash.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolHash.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolHash.dir/link.d -o ../../../../rdkit/Chem/rdMolHash.so CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o ../../../../lib/libRDKitMolHash.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 37%] Built target rdMolHash [ 37%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleContribs.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleContribs.cpp.o -MF CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleContribs.cpp.o.d -o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleContribs.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleContribs.cpp [ 37%] Linking CXX shared library ../../../lib/libRDKitChemTransforms.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ChemTransforms.dir/link.d -Wl,-soname,libRDKitChemTransforms.so.1 -o ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o CMakeFiles/ChemTransforms.dir/MolFragmenterJSONParser.cpp.o CMakeFiles/ChemTransforms.dir/MolZip.cpp.o ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1 ../../../lib/libRDKitChemTransforms.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 37%] Built target ChemTransforms 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake "--color=" FileParsers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 37%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o [ 37%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/CDXMLParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/Mol2FileParser.cpp [ 37%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/CDXMLParser.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/MolFileParser.cpp [ 37%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SCSRMolFileParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SCSRMolFileParser.cpp.o -MF CMakeFiles/FileParsers.dir/SCSRMolFileParser.cpp.o.d -o CMakeFiles/FileParsers.dir/SCSRMolFileParser.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/SCSRMolFileParser.cpp [ 37%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o -MF CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o.d -o CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolSGroupParsing.cpp [ 37%] Linking CXX shared library ../../../lib/libRDKitForceFieldHelpers.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ForceFieldHelpers.dir/link.d -Wl,-soname,libRDKitForceFieldHelpers.so.1 -o ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleContribs.cpp.o ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1 ../../../lib/libRDKitForceFieldHelpers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 37%] Built target ForceFieldHelpers [ 37%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/MolSGroupWriting.cpp [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/MolFileStereochem.cpp [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/MolFileWriter.cpp [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/ForwardSDMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/SDMolSupplier.cpp [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/SDWriter.cpp [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp make -f Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/build.make Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ForceField /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/DependInfo.cmake "--color=" ForceFieldsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/build.make Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 38%] Building CXX object Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/ForceField/CMakeFiles/ForceFieldsCatch.dir/catch_tests.cpp.o -MF CMakeFiles/ForceFieldsCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/ForceFieldsCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/ForceField/catch_tests.cpp [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/SmilesWriter.cpp make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/DistGeom /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake "--color=" DistGeometry make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 38%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DistGeom/CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o -MF CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o.d -o CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DistGeom/DistGeomUtils.cpp [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/TDTMolSupplier.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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ForceField/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake "--color=" rdForceField make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 38%] Building CXX object Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/ForceField.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/ForceField/Wrap/ForceField.cpp [ 38%] Linking CXX executable ForceFieldsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceFieldsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/ForceFieldsCatch.dir/link.d CMakeFiles/ForceFieldsCatch.dir/catch_tests.cpp.o -o ForceFieldsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitForceField.so.1.2026.03.2 ../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 38%] Built target ForceFieldsCatch [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTWriter.cpp.o -MF CMakeFiles/FileParsers.dir/TDTWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/TDTWriter.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/TDTWriter.cpp [ 38%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DistGeom/CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o -MF CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o.d -o CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DistGeom/TriangleSmooth.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake "--color=" rdForceFieldHelpers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 38%] Building CXX object Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/TplFileParser.cpp [ 38%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistViolationContribs.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DistGeom/CMakeFiles/DistGeometry.dir/DistViolationContribs.cpp.o -MF CMakeFiles/DistGeometry.dir/DistViolationContribs.cpp.o.d -o CMakeFiles/DistGeometry.dir/DistViolationContribs.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DistGeom/DistViolationContribs.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInteractionFields /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields/CMakeFiles/MolInteractionFields.dir/DependInfo.cmake "--color=" MolInteractionFields make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 38%] Building CXX object Code/GraphMol/MolInteractionFields/CMakeFiles/MolInteractionFields.dir/MIFDescriptors.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolInteractionFields/MIFDescriptors.cpp [ 38%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/ChiralViolationContribs.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DistGeom/CMakeFiles/DistGeometry.dir/ChiralViolationContribs.cpp.o -MF CMakeFiles/DistGeometry.dir/ChiralViolationContribs.cpp.o.d -o CMakeFiles/DistGeometry.dir/ChiralViolationContribs.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DistGeom/ChiralViolationContribs.cpp [ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o -MF CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/TplFileWriter.cpp [ 39%] Linking CXX shared library ../../lib/libRDKitDistGeometry.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeometry.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/DistGeometry.dir/link.d -Wl,-soname,libRDKitDistGeometry.so.1 -o ../../lib/libRDKitDistGeometry.so.1.2026.03.2 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.1.2026.03.2 ../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../lib/libRDKitForceField.so.1.2026.03.2 ../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../lib/libRDKitDistGeometry.so.1 ../../lib/libRDKitDistGeometry.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 39%] Built target DistGeometry 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake "--color=" DistGeomHelpers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 39%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.cpp [ 39%] Linking CXX shared module ../../../rdkit/ForceField/rdForceField.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdForceField.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdForceField.dir/link.d -o ../../../rdkit/ForceField/rdForceField.so CMakeFiles/rdForceField.dir/ForceField.cpp.o ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 39%] Built target rdForceField make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/DistGeom /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake "--color=" testDistGeom make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 39%] Building CXX object Code/DistGeom/CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/DistGeom/CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -MF CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o.d -o CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DistGeom/testDistGeom.cpp [ 39%] Linking CXX shared module ../../../../rdkit/Chem/rdForceFieldHelpers.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdForceFieldHelpers.dir/link.txt --verbose=1 [ 40%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/PDBParser.cpp.o -MF CMakeFiles/FileParsers.dir/PDBParser.cpp.o.d -o CMakeFiles/FileParsers.dir/PDBParser.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/PDBParser.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdForceFieldHelpers.dir/link.d -o ../../../../rdkit/Chem/rdForceFieldHelpers.so CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o ../../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 40%] Built target rdForceFieldHelpers [ 40%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Embedder.cpp.o -MF CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o.d -o CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers/Embedder.cpp [ 40%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBWriter.cpp.o -MF CMakeFiles/FileParsers.dir/PDBWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/PDBWriter.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/PDBWriter.cpp [ 40%] Linking CXX shared library ../../../lib/libRDKitMolInteractionFields.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolInteractionFields.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MolInteractionFields.dir/link.d -Wl,-soname,libRDKitMolInteractionFields.so.1 -o ../../../lib/libRDKitMolInteractionFields.so.1.2026.03.2 CMakeFiles/MolInteractionFields.dir/MIFDescriptors.cpp.o ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolInteractionFields.so.1.2026.03.2 ../../../lib/libRDKitMolInteractionFields.so.1 ../../../lib/libRDKitMolInteractionFields.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 40%] Built target MolInteractionFields make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/DistGeom/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake "--color=" DistGeom make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 40%] Building CXX object Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DistGeom.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DDistGeom_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DistGeom.cpp.o -MF CMakeFiles/DistGeom.dir/DistGeom.cpp.o.d -o CMakeFiles/DistGeom.dir/DistGeom.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/DistGeom/Wrap/DistGeom.cpp [ 40%] Linking CXX executable testDistGeom cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeom.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testDistGeom.dir/link.d CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -o testDistGeom ../RDGeneral/librdkitCatch.a ../../lib/libRDKitDistGeometry.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../lib/libRDKitForceField.so.1.2026.03.2 ../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 40%] Built target testDistGeom 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInteractionFields/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields/Wrap/CMakeFiles/rdMIF.dir/DependInfo.cmake "--color=" rdMIF make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 40%] Building CXX object Code/GraphMol/MolInteractionFields/Wrap/CMakeFiles/rdMIF.dir/rdMIF.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolInteractionFields/Wrap/rdMIF.cpp [ 40%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/EmbedderUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/EmbedderUtils.cpp.o -MF CMakeFiles/DistGeomHelpers.dir/EmbedderUtils.cpp.o.d -o CMakeFiles/DistGeomHelpers.dir/EmbedderUtils.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers/EmbedderUtils.cpp [ 40%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/CMLWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/CMLWriter.cpp.o -MF CMakeFiles/FileParsers.dir/CMLWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/CMLWriter.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/CMLWriter.cpp [ 40%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o -MF CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o.d -o CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/XYZFileWriter.cpp [ 40%] Linking CXX shared module ../../../rdkit/DistanceGeometry/DistGeom.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeom.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/DistGeom.dir/link.d -o ../../../rdkit/DistanceGeometry/DistGeom.so CMakeFiles/DistGeom.dir/DistGeom.cpp.o ../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 40%] Built target DistGeom [ 40%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o -MF CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o.d -o CMakeFiles/FileParsers.dir/XYZFileParser.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/XYZFileParser.cpp [ 40%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/MaeMolSupplier.cpp [ 40%] Linking CXX shared library ../../../lib/libRDKitDistGeomHelpers.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeomHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/DistGeomHelpers.dir/link.d -Wl,-soname,libRDKitDistGeomHelpers.so.1 -o ../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o CMakeFiles/DistGeomHelpers.dir/EmbedderUtils.cpp.o ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 ../../../lib/libRDKitDistGeomHelpers.so.1 ../../../lib/libRDKitDistGeomHelpers.so [ 40%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/MaeWriter.cpp make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 40%] Built target DistGeomHelpers [ 40%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/ProximityBonds.cpp [ 40%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/SequenceParsers.cpp [ 41%] Linking CXX shared module ../../../../rdkit/Chem/rdMIF.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMIF.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMIF.dir/link.d -o ../../../../rdkit/Chem/rdMIF.so CMakeFiles/rdMIF.dir/rdMIF.cpp.o ../../../../lib/libRDKitMolInteractionFields.so.1.2026.03.2 ../../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 41%] Built target rdMIF [ 41%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/SequenceWriters.cpp [ 42%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SVGParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FileParsers/SVGParser.cpp [ 42%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PNGParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PNGParser.cpp.o -MF CMakeFiles/FileParsers.dir/PNGParser.cpp.o.d -o CMakeFiles/FileParsers.dir/PNGParser.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/PNGParser.cpp [ 42%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MultithreadedMolSupplier.cpp [ 42%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.cpp [ 42%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o -MF CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o.d -o CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.cpp [ 42%] Linking CXX shared library ../../../lib/libRDKitFileParsers.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/FileParsers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/FileParsers.dir/link.d -Wl,-soname,libRDKitFileParsers.so.1 -o ../../../lib/libRDKitFileParsers.so.1.2026.03.2 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.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1 ../../../lib/libRDKitFileParsers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 42%] Built target FileParsers make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/depend 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 -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/depend make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/DependInfo.cmake "--color=" Descriptors make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/External/CoordGen /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/CoordGen /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake "--color=" testCoordGen make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/UFF /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/DependInfo.cmake "--color=" testUFFForceField make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/MMFF /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake "--color=" testMMFFForceField make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake "--color=" graphmolTest1 make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/DependInfo.cmake "--color=" graphmolMolOpsTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/build make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 43%] Building CXX object External/CoordGen/CMakeFiles/testCoordGen.dir/test.cpp.o [ 43%] Building CXX object Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o [ 43%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Crippen.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/CoordGen && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/External/CoordGen/test.cpp [ 44%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/UFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/ForceField/UFF/testUFFForceField.cpp [ 44%] Building CXX object Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Crippen.cpp.o -MF CMakeFiles/Descriptors.dir/Crippen.cpp.o.d -o CMakeFiles/Descriptors.dir/Crippen.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Crippen.cpp [ 44%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTest1.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/molopstest.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/MMFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/ForceField/MMFF/testMMFFForceField.cpp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/graphmolTest1.dir/test1.cpp.o -MF CMakeFiles/graphmolTest1.dir/test1.cpp.o.d -o CMakeFiles/graphmolTest1.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/test1.cpp [ 44%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/BCUT.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/BCUT.cpp.o -MF CMakeFiles/Descriptors.dir/BCUT.cpp.o.d -o CMakeFiles/Descriptors.dir/BCUT.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/BCUT.cpp [ 44%] Linking CXX executable testUFFForceField cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/UFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testUFFForceField.dir/link.txt --verbose=1 [ 44%] Linking CXX executable testCoordGen cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 44%] 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/DependInfo.cmake "--color=" graphmoltestChirality make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 44%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/testChirality.cpp [ 44%] Built target testCoordGen make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/DependInfo.cmake "--color=" graphmoltestPickler make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 44%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/testPickler.cpp [ 44%] Linking CXX executable graphmolTest1 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolTest1.dir/link.txt --verbose=1 [ 44%] Linking CXX executable testMMFFForceField cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/graphmolTest1.dir/link.d CMakeFiles/graphmolTest1.dir/test1.cpp.o -o graphmolTest1 ../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../lib/libRDKitForceField.so.1.2026.03.2 ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 44%] Built target graphmolTest1 make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/DependInfo.cmake "--color=" graphmoltestPicklerGlobalSetting make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 44%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/testPicklerGlobalSettings.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 44%] Built target testMMFFForceField make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/hanoiTest.dir/DependInfo.cmake "--color=" hanoiTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 44%] Building CXX object Code/GraphMol/CMakeFiles/hanoiTest.dir/hanoitest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/hanoitest.cpp [ 44%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o -MF CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o.d -o CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MolDescriptors.cpp [ 44%] Linking CXX executable graphmoltestPicklerGlobalSetting cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/graphmoltestPicklerGlobalSetting.dir/link.d CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o -o graphmoltestPicklerGlobalSetting ../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 44%] Built target graphmoltestPicklerGlobalSetting make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/DependInfo.cmake "--color=" resMolSupplierTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 44%] Building CXX object Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/resMolSupplierTest.cpp [ 44%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolSurf.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Descriptors/MolSurf.cpp [ 45%] Linking CXX executable hanoiTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 45%] 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/molBundleTest.dir/DependInfo.cmake "--color=" molBundleTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 46%] Building CXX object Code/GraphMol/CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/testMolBundle.cpp [ 46%] Linking CXX executable graphmoltestPickler cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPickler.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/graphmoltestPickler.dir/link.d CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -o graphmoltestPickler ../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 46%] Built target graphmoltestPickler [ 46%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Lipinski.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Descriptors/Lipinski.cpp [ 46%] Linking CXX executable resMolSupplierTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/testSGroup.dir/DependInfo.cmake "--color=" testSGroup make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 46%] Building CXX object Code/GraphMol/CMakeFiles/testSGroup.dir/testSGroup.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/testSGroup.cpp [ 47%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/ConnectivityDescriptors.cpp.o -MF CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o.d -o CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/ConnectivityDescriptors.cpp [ 47%] Linking CXX executable graphmoltestChirality cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 47%] Built target graphmoltestChirality make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/test-valgrind.dir/DependInfo.cmake "--color=" test-valgrind make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Building CXX object Code/GraphMol/CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/test-valgrind.dir/test-valgrind.cpp.o -MF CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o.d -o CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/test-valgrind.cpp [ 48%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MQN.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Descriptors/MQN.cpp [ 48%] Linking CXX executable molBundleTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/molBundleTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/molBundleTest.dir/link.d CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o -o molBundleTest ../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Built target molBundleTest make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake "--color=" graphmolTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/graphmolTestsCatch.dir/catch_graphmol.cpp.o -MF CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o.d -o CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/catch_graphmol.cpp [ 48%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Property.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Descriptors/Property.cpp [ 48%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o -MF CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o.d -o CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/AUTOCORR2D.cpp [ 48%] Linking CXX executable test-valgrind cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-valgrind.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/test-valgrind.dir/link.d "CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o" -o test-valgrind ../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Built target test-valgrind make -f Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/DependInfo.cmake "--color=" graphmolOrganometallicsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Building CXX object Code/GraphMol/CMakeFiles/graphmolOrganometallicsCatch.dir/catch_organometallics.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/catch_organometallics.cpp [ 48%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Data3Ddescriptors.cpp.o -MF CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o.d -o CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Data3Ddescriptors.cpp [ 48%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/MolData3Ddescriptors.cpp.o -MF CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o.d -o CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MolData3Ddescriptors.cpp [ 48%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Descriptors/USRDescriptor.cpp [ 48%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AtomFeat.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/AtomFeat.cpp.o -MF CMakeFiles/Descriptors.dir/AtomFeat.cpp.o.d -o CMakeFiles/Descriptors.dir/AtomFeat.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/AtomFeat.cpp [ 48%] Linking CXX executable testSGroup cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSGroup.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testSGroup.dir/link.d CMakeFiles/testSGroup.dir/testSGroup.cpp.o -o testSGroup ../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Built target testSGroup make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/DependInfo.cmake "--color=" graphmolSGroupCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Building CXX object Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/catch_sgroups.cpp [ 48%] Linking CXX executable graphmolOrganometallicsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/graphmolOrganometallicsCatch.dir/link.d CMakeFiles/graphmolOrganometallicsCatch.dir/catch_organometallics.cpp.o -o graphmolOrganometallicsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Built target graphmolOrganometallicsCatch make -f Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/DependInfo.cmake "--color=" graphmolAdjustQueryCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Building CXX object Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o -MF CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o.d -o CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/catch_adjustquery.cpp [ 48%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/OxidationNumbers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/OxidationNumbers.cpp.o -MF CMakeFiles/Descriptors.dir/OxidationNumbers.cpp.o.d -o CMakeFiles/Descriptors.dir/OxidationNumbers.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/OxidationNumbers.cpp make -f Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/DependInfo.cmake "--color=" chiralityTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Building CXX object Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o -MF CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o.d -o CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/catch_chirality.cpp [ 48%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/DCLV.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/DCLV.cpp.o -MF CMakeFiles/Descriptors.dir/DCLV.cpp.o.d -o CMakeFiles/Descriptors.dir/DCLV.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/DCLV.cpp [ 48%] Linking CXX executable graphmolSGroupCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolSGroupCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/graphmolSGroupCatch.dir/link.d CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o -o graphmolSGroupCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Built target graphmolSGroupCatch make -f Code/GraphMol/CMakeFiles/canonTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/canonTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/canonTestsCatch.dir/DependInfo.cmake "--color=" canonTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/canonTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/canonTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Building CXX object Code/GraphMol/CMakeFiles/canonTestsCatch.dir/catch_canon.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/catch_canon.cpp [ 48%] Linking CXX executable graphmolAdjustQueryCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolAdjustQueryCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/graphmolAdjustQueryCatch.dir/link.d CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o -o graphmolAdjustQueryCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 48%] Built target graphmolAdjustQueryCatch [ 48%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/EEM.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/EEM.cpp.o -MF CMakeFiles/Descriptors.dir/EEM.cpp.o.d -o CMakeFiles/Descriptors.dir/EEM.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/EEM.cpp [ 49%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/PBF.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/PBF.cpp.o -MF CMakeFiles/Descriptors.dir/PBF.cpp.o.d -o CMakeFiles/Descriptors.dir/PBF.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/PBF.cpp [ 49%] Linking CXX executable graphmolMolOpsTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/graphmolMolOpsTest.dir/link.d CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -o graphmolMolOpsTest ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/DependInfo.cmake "--color=" pickleTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 49%] Building CXX object Code/GraphMol/CMakeFiles/pickleTestsCatch.dir/catch_pickles.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/catch_pickles.cpp [ 49%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/PMI.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/PMI.cpp.o -MF CMakeFiles/Descriptors.dir/PMI.cpp.o.d -o CMakeFiles/Descriptors.dir/PMI.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/PMI.cpp [ 49%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o -MF CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o.d -o CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/AUTOCORR3D.cpp [ 49%] Linking CXX executable canonTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Built target canonTestsCatch [ 49%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/RDF.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/RDF.cpp.o -MF CMakeFiles/Descriptors.dir/RDF.cpp.o.d -o CMakeFiles/Descriptors.dir/RDF.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/RDF.cpp [ 49%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MORSE.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/MORSE.cpp.o -MF CMakeFiles/Descriptors.dir/MORSE.cpp.o.d -o CMakeFiles/Descriptors.dir/MORSE.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MORSE.cpp [ 49%] Linking CXX executable graphmolTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/graphmolTestsCatch.dir/link.d CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o -o graphmolTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Built target graphmolTestsCatch [ 49%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/GETAWAY.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Descriptors/GETAWAY.cpp [ 49%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/WHIM.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/WHIM.cpp.o -MF CMakeFiles/Descriptors.dir/WHIM.cpp.o.d -o CMakeFiles/Descriptors.dir/WHIM.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/WHIM.cpp [ 49%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/CoulombMat.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/CoulombMat.cpp.o -MF CMakeFiles/Descriptors.dir/CoulombMat.cpp.o.d -o CMakeFiles/Descriptors.dir/CoulombMat.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/CoulombMat.cpp [ 49%] Linking CXX executable pickleTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/pickleTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/pickleTestsCatch.dir/link.d CMakeFiles/pickleTestsCatch.dir/catch_pickles.cpp.o -o pickleTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Built target pickleTestsCatch make -f Code/GraphMol/CMakeFiles/molopsTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/molopsTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/molopsTestsCatch.dir/DependInfo.cmake "--color=" molopsTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/molopsTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/molopsTestsCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Building CXX object Code/GraphMol/CMakeFiles/molopsTestsCatch.dir/catch_molops.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/molopsTestsCatch.dir/catch_molops.cpp.o -MF CMakeFiles/molopsTestsCatch.dir/catch_molops.cpp.o.d -o CMakeFiles/molopsTestsCatch.dir/catch_molops.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/catch_molops.cpp make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/DependInfo.cmake "--color=" smiTest1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/smitest1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/smiTest1.dir/smitest1.cpp.o -MF CMakeFiles/smiTest1.dir/smitest1.cpp.o.d -o CMakeFiles/smiTest1.dir/smitest1.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/smitest1.cpp make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake "--color=" ChemReactions make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Reaction.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Reaction.cpp.o -MF CMakeFiles/ChemReactions.dir/Reaction.cpp.o.d -o CMakeFiles/ChemReactions.dir/Reaction.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Reaction.cpp [ 49%] Linking CXX executable molopsTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/molopsTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/molopsTestsCatch.dir/link.d CMakeFiles/molopsTestsCatch.dir/catch_molops.cpp.o -o molopsTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Built target molopsTestsCatch make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake "--color=" smiTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/smiTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/catch_tests.cpp [ 49%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MDLParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/MDLParser.cpp.o -MF CMakeFiles/ChemReactions.dir/MDLParser.cpp.o.d -o CMakeFiles/ChemReactions.dir/MDLParser.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/MDLParser.cpp [ 49%] Linking CXX executable chiralityTestsCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/chiralityTestsCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/chiralityTestsCatch.dir/link.d CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o -o chiralityTestsCatch ../RDGeneral/librdkitCatch.a ../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Built target chiralityTestsCatch make -f Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/DependInfo.cmake "--color=" nontetrahedralCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/nontetrahedralCatch.dir/nontetrahedral_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/nontetrahedralCatch.dir/nontetrahedral_tests.cpp.o -MF CMakeFiles/nontetrahedralCatch.dir/nontetrahedral_tests.cpp.o.d -o CMakeFiles/nontetrahedralCatch.dir/nontetrahedral_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/nontetrahedral_tests.cpp [ 49%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/DaylightParser.cpp.o -MF CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o.d -o CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/DaylightParser.cpp make -f Code/GraphMol/SmilesParse/CMakeFiles/smartsTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smartsTestCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smartsTestCatch.dir/DependInfo.cmake "--color=" smartsTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/smartsTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smartsTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smartsTestCatch.dir/smarts_catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/smartsTestCatch.dir/smarts_catch_tests.cpp.o -MF CMakeFiles/smartsTestCatch.dir/smarts_catch_tests.cpp.o.d -o CMakeFiles/smartsTestCatch.dir/smarts_catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/smarts_catch_tests.cpp [ 49%] Linking CXX shared library ../../../lib/libRDKitDescriptors.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/Descriptors.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Descriptors.dir/link.d -Wl,-soname,libRDKitDescriptors.so.1 -o ../../../lib/libRDKitDescriptors.so.1.2026.03.2 CMakeFiles/Descriptors.dir/Crippen.cpp.o CMakeFiles/Descriptors.dir/BCUT.cpp.o CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o CMakeFiles/Descriptors.dir/MolSurf.cpp.o CMakeFiles/Descriptors.dir/Lipinski.cpp.o CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o CMakeFiles/Descriptors.dir/MQN.cpp.o CMakeFiles/Descriptors.dir/Property.cpp.o CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o CMakeFiles/Descriptors.dir/AtomFeat.cpp.o CMakeFiles/Descriptors.dir/OxidationNumbers.cpp.o CMakeFiles/Descriptors.dir/DCLV.cpp.o CMakeFiles/Descriptors.dir/EEM.cpp.o CMakeFiles/Descriptors.dir/PBF.cpp.o CMakeFiles/Descriptors.dir/PMI.cpp.o CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o CMakeFiles/Descriptors.dir/RDF.cpp.o CMakeFiles/Descriptors.dir/MORSE.cpp.o CMakeFiles/Descriptors.dir/GETAWAY.cpp.o CMakeFiles/Descriptors.dir/WHIM.cpp.o CMakeFiles/Descriptors.dir/CoulombMat.cpp.o ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitDescriptors.so.1 ../../../lib/libRDKitDescriptors.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Built target Descriptors [ 49%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/ReactionPickler.cpp.o -MF CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o.d -o CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionPickler.cpp [ 49%] Linking CXX executable nontetrahedralCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/nontetrahedralCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/nontetrahedralCatch.dir/link.d CMakeFiles/nontetrahedralCatch.dir/nontetrahedral_tests.cpp.o -o nontetrahedralCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Built target nontetrahedralCatch make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/DependInfo.cmake "--color=" testDepictor make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/testDepictor.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/testDepictor.cpp.o -MF CMakeFiles/testDepictor.dir/testDepictor.cpp.o.d -o CMakeFiles/testDepictor.dir/testDepictor.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/testDepictor.cpp [ 49%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ChemReactions/ReactionWriter.cpp [ 49%] Linking CXX executable smartsTestCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smartsTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/smartsTestCatch.dir/link.d CMakeFiles/smartsTestCatch.dir/smarts_catch_tests.cpp.o -o smartsTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Built target smartsTestCatch make -f Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/build.make Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/DependInfo.cmake "--color=" depictorCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/build.make Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Depictor/CMakeFiles/depictorCatch.dir/catch_tests.cpp.o -MF CMakeFiles/depictorCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/depictorCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/catch_tests.cpp [ 49%] Linking CXX executable smiTest1 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTest1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/smiTest1.dir/link.d CMakeFiles/smiTest1.dir/smitest1.cpp.o -o smiTest1 ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Built target smiTest1 [ 49%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionDepict.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/ReactionDepict.cpp.o -MF CMakeFiles/ChemReactions.dir/ReactionDepict.cpp.o.d -o CMakeFiles/ChemReactions.dir/ReactionDepict.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionDepict.cpp [ 49%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ChemReactions/ReactionFingerprints.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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/DependInfo.cmake "--color=" fileParsersTest1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/test1.cpp make -f Code/GraphMol/FileParsers/CMakeFiles/testAtropisomers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testAtropisomers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testAtropisomers.dir/DependInfo.cmake "--color=" testAtropisomers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testAtropisomers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testAtropisomers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testAtropisomers.dir/testAtropisomers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testAtropisomers.dir/testAtropisomers.cpp.o -MF CMakeFiles/testAtropisomers.dir/testAtropisomers.cpp.o.d -o CMakeFiles/testAtropisomers.dir/testAtropisomers.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/testAtropisomers.cpp [ 49%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ChemReactions/ReactionUtils.cpp [ 49%] Linking CXX executable testDepictor cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDepictor.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 49%] Built target testDepictor make -f Code/GraphMol/FileParsers/CMakeFiles/testSquiggleDoubleBonds.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSquiggleDoubleBonds.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testSquiggleDoubleBonds.dir/DependInfo.cmake "--color=" testSquiggleDoubleBonds make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 50%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testSquiggleDoubleBonds.dir/testSquiggleDoubleBonds.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/testSquiggleDoubleBonds.cpp [ 50%] Linking CXX executable smiTestCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTestCatch.dir/link.txt --verbose=1 [ 50%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ChemReactions/MoleculeParser.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/smiTestCatch.dir/link.d CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o -o smiTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 50%] Built target smiTestCatch [ 51%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/ReactionRunner.cpp.o -MF CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o.d -o CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionRunner.cpp [ 51%] Linking CXX executable testAtropisomers cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 51%] Built target testAtropisomers 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake "--color=" testMolSupplier make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 51%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/testMolSupplier.cpp [ 51%] Linking CXX executable testSquiggleDoubleBonds cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 51%] Built target testSquiggleDoubleBonds [ 51%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/PreprocessRxn.cpp.o -MF CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o.d -o CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/PreprocessRxn.cpp [ 51%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/SanitizeRxn.cpp.o -MF CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o.d -o CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/SanitizeRxn.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/DependInfo.cmake "--color=" testGeneralFileReader make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 51%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/testGeneralFileReader.cpp [ 52%] Linking CXX executable depictorCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 52%] Built target depictorCatch [ 52%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PNGParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/PNGParser.cpp.o -MF CMakeFiles/ChemReactions.dir/PNGParser.cpp.o.d -o CMakeFiles/ChemReactions.dir/PNGParser.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/PNGParser.cpp [ 52%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o -MF CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o.d -o CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/CDXMLParser.cpp [ 52%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -fpermissive -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o -MF CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o.d -o CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/Enumerate.cpp [ 52%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o -MF CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o.d -o CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.cpp [ 52%] Linking CXX executable testGeneralFileReader cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitRDStreams.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 52%] 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/DependInfo.cmake "--color=" testMultithreadedMolSupplier make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/testMultithreadedMolSupplier.cpp [ 52%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o -MF CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o.d -o CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.cpp [ 52%] Linking CXX executable testMolSupplier cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitRDStreams.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 52%] Built target testMolSupplier 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/DependInfo.cmake "--color=" testMolWriter make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/testMolWriter.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/DependInfo.cmake "--color=" testTplParser make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/testTpls.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/testTpls.cpp [ 52%] Linking CXX executable testMultithreadedMolSupplier cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitRDStreams.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 52%] Built target testMultithreadedMolSupplier 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/DependInfo.cmake "--color=" testMol2ToMol make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/testMol2ToMol.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/DependInfo.cmake "--color=" testSequence make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/testSequence.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/testSequence.cpp [ 52%] Linking CXX shared library ../../../lib/libRDKitChemReactions.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemReactions.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ChemReactions.dir/link.d -Wl,-soname,libRDKitChemReactions.so.1 -o ../../../lib/libRDKitChemReactions.so.1.2026.03.2 CMakeFiles/ChemReactions.dir/Reaction.cpp.o CMakeFiles/ChemReactions.dir/MDLParser.cpp.o CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o CMakeFiles/ChemReactions.dir/ReactionDepict.cpp.o CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o CMakeFiles/ChemReactions.dir/PNGParser.cpp.o CMakeFiles/ChemReactions.dir/CDXMLParser.cpp.o CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1 ../../../lib/libRDKitChemReactions.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 52%] Built target ChemReactions 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/DependInfo.cmake "--color=" testExtendedStereoParsing make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/testExtendedStereoParsing.cpp [ 52%] Linking CXX executable testTplParser cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 52%] Built target testTplParser 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/DependInfo.cmake "--color=" fileParsersCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/file_parsers_catch.cpp [ 53%] Linking CXX executable testMol2ToMol cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMol2ToMol.dir/link.txt --verbose=1 [ 53%] Linking CXX executable testSequence cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 53%] Built target testMol2ToMol make -f Code/GraphMol/FileParsers/CMakeFiles/macromolsCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/macromolsCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/macromolsCatchTest.dir/DependInfo.cmake "--color=" macromolsCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/macromolsCatchTest.dir/macromols_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/macromols_catch.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 53%] Built target testSequence 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/DependInfo.cmake "--color=" testPropertyLists make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/testPropertyLists.cpp [ 53%] Linking CXX executable testExtendedStereoParsing cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 53%] Built target testExtendedStereoParsing make -f Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/DependInfo.cmake "--color=" XYZFileParserCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/XYZFileParserCatchTest.dir/XYZFileParserCatchTest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/XYZFileParserCatchTest.cpp [ 53%] Linking CXX executable fileParsersTest1 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 53%] 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/DependInfo.cmake "--color=" cdxmlParserCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/cdxmlParserCatchTest.dir/cdxml_parser_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/cdxml_parser_catch.cpp [ 53%] Linking CXX executable testMolWriter cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 53%] Built target testMolWriter 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/DependInfo.cmake "--color=" molfileStereoCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/molfileStereoCatchTest.dir/molfile_stereo_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/molfile_stereo_catch.cpp [ 53%] Linking CXX executable macromolsCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 53%] Built target macromolsCatchTest make -f Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/DependInfo.cmake "--color=" connectTheDotsTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/connectTheDotsTest.dir/connectTheDots_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/connectTheDots_catch.cpp [ 54%] Linking CXX executable XYZFileParserCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 54%] Built target XYZFileParserCatchTest make -f Code/GraphMol/FileParsers/CMakeFiles/v2MolSuppliers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/v2MolSuppliers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/v2MolSuppliers.dir/DependInfo.cmake "--color=" v2MolSuppliers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/v2MolSuppliers.dir/v2_suppliers_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/v2_suppliers_catch.cpp [ 55%] Linking CXX executable cdxmlParserCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/v2FileParsersCatchTest.dir/DependInfo.cmake "--color=" v2FileParsersCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/v2FileParsersCatchTest.dir/v2_file_parsers_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/v2_file_parsers_catch.cpp [ 55%] Linking CXX executable connectTheDotsTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/connectTheDotsTest.dir/link.txt --verbose=1 [ 55%] Linking CXX executable testPropertyLists cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testPropertyLists.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target connectTheDotsTest 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/atropisomersCatch.dir/DependInfo.cmake "--color=" atropisomersCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/atropisomersCatch.dir/atropisomers_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/atropisomers_catch.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target testPropertyLists 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/multithreadedSupplierCatchTest.dir/DependInfo.cmake "--color=" multithreadedSupplierCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/multithreadedSupplierCatchTest.dir/multithreaded_supplier_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FileParsers/multithreaded_supplier_catch.cpp [ 55%] Linking CXX executable molfileStereoCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target molfileStereoCatchTest 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/DependInfo.cmake "--color=" testSubstructMatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/testSubstructMatch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testSubstructMatch.cpp.o -MF CMakeFiles/testSubstructMatch.dir/testSubstructMatch.cpp.o.d -o CMakeFiles/testSubstructMatch.dir/testSubstructMatch.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Substruct/testSubstructMatch.cpp [ 55%] Linking CXX executable v2MolSuppliers cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target v2MolSuppliers make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/DependInfo.cmake "--color=" substructTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/Substruct/catch_tests.cpp [ 55%] Linking CXX executable v2FileParsersCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target v2FileParsersCatchTest make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/DependInfo.cmake "--color=" testReaction make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/testReaction.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/ChemReactions/testReaction.cpp [ 55%] Linking CXX executable atropisomersCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target atropisomersCatch make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake "--color=" testReactionFingerprints make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/ChemReactions/testReactionFingerprints.cpp [ 55%] Linking CXX executable multithreadedSupplierCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/multithreadedSupplierCatchTest.dir/link.d CMakeFiles/multithreadedSupplierCatchTest.dir/multithreaded_supplier_catch.cpp.o -o multithreadedSupplierCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target multithreadedSupplierCatchTest make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/DependInfo.cmake "--color=" testEnumeration make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -MF CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o.d -o CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/testEnumerate.cpp [ 55%] Linking CXX executable testReactionFingerprints cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReactionFingerprints.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testReactionFingerprints.dir/link.d CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -o testReactionFingerprints ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake "--color=" rxnTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/catch_tests.cpp [ 55%] Linking CXX executable testSubstructMatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubstructMatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testSubstructMatch.dir/link.d CMakeFiles/testSubstructMatch.dir/testSubstructMatch.cpp.o -o testSubstructMatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target testSubstructMatch make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/DependInfo.cmake "--color=" testChemTransforms make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -MF CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o.d -o CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms/testChemTransforms.cpp [ 55%] Linking CXX executable testEnumeration cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testEnumeration.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testEnumeration.dir/link.d CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -o testEnumeration ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target testEnumeration make -f Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/DependInfo.cmake "--color=" chemTransformsTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms/catch_tests.cpp [ 55%] Linking CXX executable fileParsersCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/fileParsersCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/fileParsersCatchTest.dir/link.d CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o -o fileParsersCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target fileParsersCatchTest make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/DependInfo.cmake "--color=" MolStandardize make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Pipeline.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Pipeline.cpp.o -MF CMakeFiles/MolStandardize.dir/Pipeline.cpp.o.d -o CMakeFiles/MolStandardize.dir/Pipeline.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Pipeline.cpp [ 55%] Linking CXX executable substructTestCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/substructTestCatch.dir/link.d CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o -o substructTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target substructTestCatch 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/DependInfo.cmake "--color=" filterCatalogTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FilterCatalog/filtercatalogtest.cpp [ 55%] Linking CXX executable filterCatalogTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target filterCatalogTest 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/DependInfo.cmake "--color=" testFragCatalog make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FragCatalog/test1.cpp [ 55%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/MolStandardize.cpp [ 55%] Linking CXX executable testChemTransforms cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testChemTransforms.dir/link.d CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -o testChemTransforms ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target testChemTransforms 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/DependInfo.cmake "--color=" rdfragcatalog make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FragCatalog/Wrap/rdfragcatalog.cpp [ 55%] Linking CXX executable chemTransformsTestCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/chemTransformsTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/chemTransformsTestCatch.dir/link.d CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o -o chemTransformsTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target chemTransformsTestCatch make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/DependInfo.cmake "--color=" testDescriptors make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/test.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testDescriptors.dir/test.cpp.o -MF CMakeFiles/testDescriptors.dir/test.cpp.o.d -o CMakeFiles/testDescriptors.dir/test.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/test.cpp [ 55%] Linking CXX executable testFragCatalog cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target testFragCatalog [ 55%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Metal.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Metal.cpp.o -MF CMakeFiles/MolStandardize.dir/Metal.cpp.o.d -o CMakeFiles/MolStandardize.dir/Metal.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Metal.cpp [ 55%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp [ 55%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FragCatalog/Wrap/FragCatParams.cpp [ 55%] Linking CXX executable rxnTestCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/rxnTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/rxnTestCatch.dir/link.d CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o -o rxnTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitChemReactions.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 55%] Built target rxnTestCatch [ 55%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Normalize.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/Normalize.cpp [ 55%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Validate.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/Validate.cpp [ 56%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FragCatalog/Wrap/FragCatGenerator.cpp [ 56%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FragCatalog/Wrap/FragFPGenerator.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake "--color=" testAUTOCORR2D make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 56%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -MF CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o.d -o CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/testAUTOCORR2D.cpp [ 56%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Charge.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/Charge.cpp [ 56%] Linking CXX shared module ../../../../rdkit/Chem/rdfragcatalog.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdfragcatalog.dir/link.txt --verbose=1 [ 57%] Linking CXX executable testDescriptors cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDescriptors.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdfragcatalog.dir/link.d -o ../../../../rdkit/Chem/rdfragcatalog.so CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o ../../../../lib/libRDKitFragCatalog.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 57%] Built target rdfragcatalog [ 57%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Tautomer.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Tautomer.cpp.o -MF CMakeFiles/MolStandardize.dir/Tautomer.cpp.o.d -o CMakeFiles/MolStandardize.dir/Tautomer.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Tautomer.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testDescriptors.dir/link.d CMakeFiles/testDescriptors.dir/test.cpp.o -o testDescriptors ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 57%] Built target testDescriptors make -f Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/DependInfo.cmake "--color=" testATF make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 57%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/testATF.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/Descriptors/testATF.cpp [ 57%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Fragment.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Fragment.cpp.o -MF CMakeFiles/MolStandardize.dir/Fragment.cpp.o.d -o CMakeFiles/MolStandardize.dir/Fragment.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Fragment.cpp [ 57%] Linking CXX executable testAUTOCORR2D cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 57%] Built target testAUTOCORR2D 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/DependInfo.cmake "--color=" testBCUT make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 57%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/testBCUT.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/Descriptors/testBCUT.cpp [ 57%] Linking CXX executable testATF cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 57%] Built target testATF [ 57%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o -MF CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o.d -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.cpp [ 57%] Linking CXX executable testReaction cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReaction.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testReaction.dir/link.d CMakeFiles/testReaction.dir/testReaction.cpp.o -o testReaction ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 57%] Built target testReaction 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/DependInfo.cmake "--color=" testEEM make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 57%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/testEEM.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/Descriptors/testEEM.cpp [ 58%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/FragmentCatalogParams.cpp.o -MF CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o.d -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.cpp [ 58%] Linking CXX executable testBCUT cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testBCUT.dir/link.txt --verbose=1 [ 58%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testBCUT.dir/link.d CMakeFiles/testBCUT.dir/testBCUT.cpp.o -o testBCUT ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 58%] Built target testBCUT [ 58%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.cpp [ 58%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.cpp make -f Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/DependInfo.cmake "--color=" testPBF make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 59%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/testPBF.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testPBF.dir/testPBF.cpp.o -MF CMakeFiles/testPBF.dir/testPBF.cpp.o.d -o CMakeFiles/testPBF.dir/testPBF.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/testPBF.cpp [ 59%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.cpp [ 59%] Linking CXX executable testEEM cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testEEM.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testEEM.dir/link.d CMakeFiles/testEEM.dir/testEEM.cpp.o -o testEEM ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 59%] Built target testEEM [ 59%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.cpp [ 59%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o -MF CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o.d -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.cpp [ 59%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/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-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/TautomerCatalogEntry.cpp.o -MF CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o.d -o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.cpp [ 59%] Linking CXX executable testPBF cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testPBF.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testPBF.dir/link.d CMakeFiles/testPBF.dir/testPBF.cpp.o -o testPBF ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 59%] Built target testPBF [ 59%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.cpp [ 59%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/TautomerCatalogUtils.cpp.o -MF CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o.d -o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.cpp make -f Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/DependInfo.cmake "--color=" testRDFcustom make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 59%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/testRDFcustom.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testRDFcustom.dir/testRDFcustom.cpp.o -MF CMakeFiles/testRDFcustom.dir/testRDFcustom.cpp.o.d -o CMakeFiles/testRDFcustom.dir/testRDFcustom.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/testRDFcustom.cpp make -f Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/DependInfo.cmake "--color=" testRDF make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 59%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/testRDF.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testRDF.dir/testRDF.cpp.o -MF CMakeFiles/testRDF.dir/testRDF.cpp.o.d -o CMakeFiles/testRDF.dir/testRDF.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/testRDF.cpp make -f Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/DependInfo.cmake "--color=" testMORSE make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 59%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/testMORSE.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testMORSE.dir/testMORSE.cpp.o -MF CMakeFiles/testMORSE.dir/testMORSE.cpp.o.d -o CMakeFiles/testMORSE.dir/testMORSE.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/testMORSE.cpp make -f Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/DependInfo.cmake "--color=" test3D make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 59%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/test3D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/test3D.dir/test3D.cpp.o -MF CMakeFiles/test3D.dir/test3D.cpp.o.d -o CMakeFiles/test3D.dir/test3D.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/test3D.cpp make -f Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/DependInfo.cmake "--color=" testWHIM make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 59%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/testWHIM.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testWHIM.dir/testWHIM.cpp.o -MF CMakeFiles/testWHIM.dir/testWHIM.cpp.o.d -o CMakeFiles/testWHIM.dir/testWHIM.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/testWHIM.cpp [ 60%] Linking CXX shared library ../../../lib/libRDKitMolStandardize.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolStandardize.dir/link.txt --verbose=1 [ 60%] Linking CXX executable testRDF cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRDF.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MolStandardize.dir/link.d -Wl,-soname,libRDKitMolStandardize.so.1 -o ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 CMakeFiles/MolStandardize.dir/Pipeline.cpp.o CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o CMakeFiles/MolStandardize.dir/Metal.cpp.o CMakeFiles/MolStandardize.dir/Normalize.cpp.o CMakeFiles/MolStandardize.dir/Validate.cpp.o CMakeFiles/MolStandardize.dir/Charge.cpp.o CMakeFiles/MolStandardize.dir/Tautomer.cpp.o CMakeFiles/MolStandardize.dir/Fragment.cpp.o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogParams.cpp.o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1 ../../../lib/libRDKitMolStandardize.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 60%] Built target MolStandardize make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/DependInfo.cmake "--color=" testGETAWAY make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 60%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testGETAWAY.dir/testGETAWAY.cpp.o -MF CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o.d -o CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/testGETAWAY.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testRDF.dir/link.d CMakeFiles/testRDF.dir/testRDF.cpp.o -o testRDF ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 60%] Built target testRDF make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/DependInfo.cmake "--color=" testAUTOCORR3D make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 60%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o -MF CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o.d -o CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/testAUTOCORR3D.cpp [ 61%] Linking CXX executable testMORSE cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMORSE.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testMORSE.dir/link.d CMakeFiles/testMORSE.dir/testMORSE.cpp.o -o testMORSE ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 61%] Built target testMORSE make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/DependInfo.cmake "--color=" testCoulombMat make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 61%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testCoulombMat.dir/testCoulombMat.cpp.o -MF CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o.d -o CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/testCoulombMat.cpp [ 62%] Linking CXX executable testRDFcustom cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRDFcustom.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testRDFcustom.dir/link.d CMakeFiles/testRDFcustom.dir/testRDFcustom.cpp.o -o testRDFcustom ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 62%] Built target testRDFcustom make -f Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/DependInfo.cmake "--color=" descriptorsTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 62%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/descriptorsTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/descriptorsTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/descriptorsTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/descriptorsTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/catch_tests.cpp [ 62%] Linking CXX executable test3D cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/test3D.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/test3D.dir/link.d CMakeFiles/test3D.dir/test3D.cpp.o -o test3D ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 62%] Built target test3D make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/DependInfo.cmake "--color=" rdMolDescriptors make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 62%] Building CXX object Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Wrap/CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o -MF CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o.d -o CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp [ 62%] Linking CXX executable testWHIM cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testWHIM.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testWHIM.dir/link.d CMakeFiles/testWHIM.dir/testWHIM.cpp.o -o testWHIM ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 62%] Built target testWHIM make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/DependInfo.cmake "--color=" testFingerprints make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 62%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/test1.cpp.o -MF CMakeFiles/testFingerprints.dir/test1.cpp.o.d -o CMakeFiles/testFingerprints.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/test1.cpp [ 62%] Linking CXX executable testGETAWAY cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGETAWAY.dir/link.txt --verbose=1 [ 62%] Linking CXX executable testAUTOCORR3D cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAUTOCORR3D.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testGETAWAY.dir/link.d CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o -o testGETAWAY ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 62%] Built target testGETAWAY 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/DependInfo.cmake "--color=" testMHFPFingerprint make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 62%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -MF CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o.d -o CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/testMHFPFingerprint.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testAUTOCORR3D.dir/link.d CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o -o testAUTOCORR3D ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 62%] Built target testAUTOCORR3D 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake "--color=" testFingerprintGenerators make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 62%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp [ 62%] Linking CXX executable testCoulombMat cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 62%] Built target testCoulombMat 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/DependInfo.cmake "--color=" fpTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/fpTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/catch_tests.cpp [ 63%] Linking CXX executable testMHFPFingerprint cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testMHFPFingerprint.dir/link.d CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -o testMHFPFingerprint ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target testMHFPFingerprint 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.dir/DependInfo.cmake "--color=" fpGenTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/fpGenTestCatch.dir/fpgen_catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/fpGenTestCatch.dir/fpgen_catch_tests.cpp.o -MF CMakeFiles/fpGenTestCatch.dir/fpgen_catch_tests.cpp.o.d -o CMakeFiles/fpGenTestCatch.dir/fpgen_catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/fpgen_catch_tests.cpp [ 63%] Linking CXX executable descriptorsTestCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target descriptorsTestCatch make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/DependInfo.cmake "--color=" testMolTransforms make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolTransforms/test1.cpp [ 63%] Linking CXX executable testMolTransforms cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testMolTransforms.dir/link.d CMakeFiles/testMolTransforms.dir/test1.cpp.o -o testMolTransforms ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target testMolTransforms make -f Code/GraphMol/MolTransforms/CMakeFiles/molTransformsTestCatch.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/molTransformsTestCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/molTransformsTestCatch.dir/DependInfo.cmake "--color=" molTransformsTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolTransforms/CMakeFiles/molTransformsTestCatch.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/molTransformsTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/molTransformsTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/molTransformsTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/molTransformsTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/molTransformsTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolTransforms/catch_tests.cpp [ 63%] Linking CXX executable fpTestCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/fpTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/fpTestCatch.dir/link.d CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o -o fpTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target fpTestCatch make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/forceFieldHelpersCatch.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/forceFieldHelpersCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/forceFieldHelpersCatch.dir/DependInfo.cmake "--color=" forceFieldHelpersCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/forceFieldHelpersCatch.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/forceFieldHelpersCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/forceFieldHelpersCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/CMakeFiles/forceFieldHelpersCatch.dir/catch_tests.cpp.o -MF CMakeFiles/forceFieldHelpersCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/forceFieldHelpersCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/catch_tests.cpp [ 63%] Linking CXX executable fpGenTestCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/fpGenTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/fpGenTestCatch.dir/link.d CMakeFiles/fpGenTestCatch.dir/fpgen_catch_tests.cpp.o -o fpGenTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target fpGenTestCatch make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/DependInfo.cmake "--color=" testMMFFForceFieldHelpers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o -MF CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o.d -o CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFHelpers.cpp [ 63%] Linking CXX executable testFingerprintGenerators cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFingerprintGenerators.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testFingerprintGenerators.dir/link.d CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -o testFingerprintGenerators ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target testFingerprintGenerators make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/DependInfo.cmake "--color=" testMMFFForceFieldHelpersMultiThread make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o -MF CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o.d -o CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF/testMultiThread.cpp [ 63%] Linking CXX executable molTransformsTestCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/molTransformsTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/molTransformsTestCatch.dir/link.d CMakeFiles/molTransformsTestCatch.dir/catch_tests.cpp.o -o molTransformsTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target molTransformsTestCatch make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/UFF /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake "--color=" testUFFForceFieldHelpers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -MF CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o.d -o CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/UFF/testUFFHelpers.cpp [ 63%] Linking CXX executable testFingerprints cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFingerprints.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testFingerprints.dir/link.d CMakeFiles/testFingerprints.dir/test1.cpp.o -o testFingerprints ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target testFingerprints 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/DependInfo.cmake "--color=" testCrystalForceField make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/ForceFieldHelpers/CrystalFF/testCrystalFF.cpp [ 63%] Linking CXX executable forceFieldHelpersCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/forceFieldHelpersCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/forceFieldHelpersCatch.dir/link.d CMakeFiles/forceFieldHelpersCatch.dir/catch_tests.cpp.o -o forceFieldHelpersCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target forceFieldHelpersCatch 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake "--color=" testDistGeomHelpers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp [ 63%] Linking CXX executable testMMFFForceFieldHelpersMultiThread cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target testMMFFForceFieldHelpersMultiThread 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/DependInfo.cmake "--color=" distGeomHelpersCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/distGeomHelpersCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/DistGeomHelpers/catch_tests.cpp [ 63%] Linking CXX shared module ../../../../rdkit/Chem/rdMolDescriptors.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolDescriptors.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolDescriptors.dir/link.d -o ../../../../rdkit/Chem/rdMolDescriptors.so CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o ../../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target rdMolDescriptors 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake "--color=" rdDistGeom make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_MAX_ARITY=32 -DBOOST_PYTHON_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdDistGeom_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Wrap/CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o -MF CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o.d -o CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp [ 63%] Linking CXX executable testMMFFForceFieldHelpers cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target testMMFFForceFieldHelpers make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/DependInfo.cmake "--color=" O3AAlign make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolAlign/O3AAlignMolecules.cpp [ 63%] Linking CXX executable testCrystalForceField cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Built target testCrystalForceField make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/DependInfo.cmake "--color=" testMolAlign make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 63%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -MF CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o.d -o CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign/testMolAlign.cpp [ 64%] Linking CXX executable testUFFForceFieldHelpers cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 64%] Built target testUFFForceFieldHelpers 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/DependInfo.cmake "--color=" molAlignCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 64%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/molAlignCatchTest.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/molAlignCatchTest.dir/catch_tests.cpp.o -MF CMakeFiles/molAlignCatchTest.dir/catch_tests.cpp.o.d -o CMakeFiles/molAlignCatchTest.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign/catch_tests.cpp [ 64%] Linking CXX executable testMolAlign cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 64%] Built target testMolAlign make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/DependInfo.cmake "--color=" testFeatures make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 65%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/testFeatures.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/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-202603.2/Code/GraphMol/MolChemicalFeatures/testFeatures.cpp [ 65%] Linking CXX shared library ../../../lib/libRDKitO3AAlign.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/O3AAlign.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/O3AAlign.dir/link.d -Wl,-soname,libRDKitO3AAlign.so.1 -o ../../../lib/libRDKitO3AAlign.so.1.2026.03.2 CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitO3AAlign.so.1.2026.03.2 ../../../lib/libRDKitO3AAlign.so.1 ../../../lib/libRDKitO3AAlign.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 65%] Built target O3AAlign make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/DependInfo.cmake "--color=" testShapeHelpers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 65%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/ShapeHelpers/testShapeHelpers.cpp [ 65%] Linking CXX executable testDistGeomHelpers cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeomHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testDistGeomHelpers.dir/link.d CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -o testDistGeomHelpers ../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 65%] Built target testDistGeomHelpers make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/DependInfo.cmake "--color=" testMolCatalog make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 65%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/MolCatalog/CMakeFiles/testMolCatalog.dir/test1.cpp.o -MF CMakeFiles/testMolCatalog.dir/test1.cpp.o.d -o CMakeFiles/testMolCatalog.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolCatalog/test1.cpp [ 65%] Linking CXX shared module ../../../../rdkit/Chem/rdDistGeom.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDistGeom.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdDistGeom.dir/link.d -o ../../../../rdkit/Chem/rdDistGeom.so CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o ../../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 65%] Built target rdDistGeom make -f Code/GraphMol/GaussianShape/CMakeFiles/testGaussianShape.dir/build.make Code/GraphMol/GaussianShape/CMakeFiles/testGaussianShape.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape/CMakeFiles/testGaussianShape.dir/DependInfo.cmake "--color=" testGaussianShape make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/GaussianShape/CMakeFiles/testGaussianShape.dir/build.make Code/GraphMol/GaussianShape/CMakeFiles/testGaussianShape.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 66%] Building CXX object Code/GraphMol/GaussianShape/CMakeFiles/testGaussianShape.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/GaussianShape/CMakeFiles/testGaussianShape.dir/catch_tests.cpp.o -MF CMakeFiles/testGaussianShape.dir/catch_tests.cpp.o.d -o CMakeFiles/testGaussianShape.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/catch_tests.cpp [ 66%] Linking CXX executable molAlignCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/molAlignCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/molAlignCatchTest.dir/link.d CMakeFiles/molAlignCatchTest.dir/catch_tests.cpp.o -o molAlignCatchTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 66%] Built target molAlignCatchTest make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake "--color=" MolDraw2D make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 66%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/MolDraw2D.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2D.cpp [ 66%] Linking CXX executable distGeomHelpersCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/distGeomHelpersCatch.dir/link.txt --verbose=1 [ 66%] Linking CXX executable testShapeHelpers cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testShapeHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testShapeHelpers.dir/link.d CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o -o testShapeHelpers ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitShapeHelpers.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 66%] 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/DependInfo.cmake "--color=" FMCS make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 66%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/FMCS.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/FMCS.cpp.o -MF CMakeFiles/FMCS.dir/FMCS.cpp.o.d -o CMakeFiles/FMCS.dir/FMCS.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/FMCS.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 ../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 66%] Built target distGeomHelpersCatch [ 66%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/Seed.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FMCS/Seed.cpp [ 66%] Linking CXX executable testFeatures cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testFeatures.dir/link.d CMakeFiles/testFeatures.dir/testFeatures.cpp.o -o testFeatures ../../../lib/libRDKitMolChemicalFeatures.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 66%] Built target testFeatures make -f Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build.make Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake "--color=" molHashCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build.make Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 66%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolHash/catch_tests.cpp [ 67%] Linking CXX executable testMolCatalog cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 67%] Built target testMolCatalog [ 67%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/TargetMatch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FMCS/TargetMatch.cpp [ 67%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FMCS/MaximumCommonSubgraph.cpp [ 67%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DSVG.cpp [ 67%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/DependInfo.cmake "--color=" MMPA make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 67%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/MMPA.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MMPA/MMPA.cpp [ 67%] Linking CXX executable molHashCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script CMakeFiles/molHashCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitMolHash.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 67%] Built target molHashCatchTest [ 68%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FMCS/SubstructMatchCustom.cpp [ 68%] Linking CXX executable testGaussianShape cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGaussianShape.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testGaussianShape.dir/link.d CMakeFiles/testGaussianShape.dir/catch_tests.cpp.o -o testGaussianShape ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitGaussianShape.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 68%] Built target testGaussianShape [ 68%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DUtils.cpp [ 68%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDrawOptionsJSONParsers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/MolDrawOptionsJSONParsers.cpp.o -MF CMakeFiles/MolDraw2D.dir/MolDrawOptionsJSONParsers.cpp.o.d -o CMakeFiles/MolDraw2D.dir/MolDrawOptionsJSONParsers.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDrawOptionsJSONParsers.cpp [ 69%] Linking CXX shared library ../../../lib/libRDKitMMPA.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/MMPA.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MMPA.dir/link.d -Wl,-soname,libRDKitMMPA.so.1 -o ../../../lib/libRDKitMMPA.so.1.2026.03.2 CMakeFiles/MMPA.dir/MMPA.cpp.o ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMMPA.so.1.2026.03.2 ../../../lib/libRDKitMMPA.so.1 ../../../lib/libRDKitMMPA.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 69%] Built target MMPA 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/DependInfo.cmake "--color=" RascalMCES make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 69%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalMCES.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/RascalMCES.cpp.o -MF CMakeFiles/RascalMCES.dir/RascalMCES.cpp.o.d -o CMakeFiles/RascalMCES.dir/RascalMCES.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/RascalMCES.cpp [ 69%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/AtomSymbol.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/AtomSymbol.cpp.o -MF CMakeFiles/MolDraw2D.dir/AtomSymbol.cpp.o.d -o CMakeFiles/MolDraw2D.dir/AtomSymbol.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/AtomSymbol.cpp make -f Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/DependInfo.cmake "--color=" MolEnumerator make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 69%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.cpp [ 69%] Linking CXX shared library ../../../lib/libRDKitFMCS.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/FMCS.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/FMCS.dir/link.d -Wl,-soname,libRDKitFMCS.so.1 -o ../../../lib/libRDKitFMCS.so.1.2026.03.2 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.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFMCS.so.1.2026.03.2 ../../../lib/libRDKitFMCS.so.1 ../../../lib/libRDKitFMCS.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 69%] Built target FMCS make -f Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/build.make Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/EnumerateStereoisomers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/DependInfo.cmake "--color=" EnumerateStereoisomers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 69%] Building CXX object Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/EnumerateStereoisomers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/EnumerateStereoisomers/EnumerateStereoisomers.cpp [ 70%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawAnnotation.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/DrawAnnotation.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/DependInfo.cmake "--color=" Deprotect make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 70%] Building CXX object Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/Deprotect.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Deprotect/Deprotect.cpp [ 70%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMol.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/DrawMol.cpp [ 70%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o -MF CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o.d -o CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/PositionVariation.cpp [ 70%] Building CXX object Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/Flippers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/EnumerateStereoisomers/CMakeFiles/EnumerateStereoisomers.dir/Flippers.cpp.o -MF CMakeFiles/EnumerateStereoisomers.dir/Flippers.cpp.o.d -o CMakeFiles/EnumerateStereoisomers.dir/Flippers.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/EnumerateStereoisomers/Flippers.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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/DependInfo.cmake "--color=" trajectoryTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 70%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/Trajectory/trajectoryTest.cpp [ 70%] Linking CXX shared library ../../../lib/libRDKitEnumerateStereoisomers.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers && /usr/bin/cmake -E cmake_link_script CMakeFiles/EnumerateStereoisomers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/EnumerateStereoisomers.dir/link.d -Wl,-soname,libRDKitEnumerateStereoisomers.so.1 -o ../../../lib/libRDKitEnumerateStereoisomers.so.1.2026.03.2 CMakeFiles/EnumerateStereoisomers.dir/EnumerateStereoisomers.cpp.o CMakeFiles/EnumerateStereoisomers.dir/Flippers.cpp.o ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 ../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitEnumerateStereoisomers.so.1.2026.03.2 ../../../lib/libRDKitEnumerateStereoisomers.so.1 ../../../lib/libRDKitEnumerateStereoisomers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 70%] Built target EnumerateStereoisomers [ 70%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolEnumerator/LinkNode.cpp [ 70%] Linking CXX shared library ../../../lib/libRDKitDeprotect.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/cmake -E cmake_link_script CMakeFiles/Deprotect.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Deprotect.dir/link.d -Wl,-soname,libRDKitDeprotect.so.1 -o ../../../lib/libRDKitDeprotect.so.1.2026.03.2 CMakeFiles/Deprotect.dir/Deprotect.cpp.o ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDeprotect.so.1.2026.03.2 ../../../lib/libRDKitDeprotect.so.1 ../../../lib/libRDKitDeprotect.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 70%] Built target Deprotect [ 70%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalCluster.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/RascalMCES/RascalCluster.cpp [ 70%] Linking CXX executable trajectoryTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 70%] Built target trajectoryTest [ 71%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/RepeatUnit.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolEnumerator/RepeatUnit.cpp [ 71%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCH.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/DrawMolMCH.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DetermineBonds /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds/CMakeFiles/DetermineBonds.dir/DependInfo.cmake "--color=" DetermineBonds make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 71%] Building CXX object Code/GraphMol/DetermineBonds/CMakeFiles/DetermineBonds.dir/DetermineBonds.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/DetermineBonds/DetermineBonds.cpp [ 71%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCHCircleAndLine.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.cpp [ 71%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalButinaCluster.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/RascalMCES/RascalButinaCluster.cpp [ 71%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawMolMCHLasso.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.cpp [ 71%] Linking CXX shared library ../../../lib/libRDKitMolEnumerator.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolEnumerator.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MolEnumerator.dir/link.d -Wl,-soname,libRDKitMolEnumerator.so.1 -o ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1 ../../../lib/libRDKitMolEnumerator.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 71%] 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/DependInfo.cmake "--color=" molInterchangeTest1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 71%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolInterchange/test1.cpp [ 71%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/lap_a_la_scipy.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/RascalMCES/lap_a_la_scipy.cpp [ 71%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawShape.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/DrawShape.cpp [ 71%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o -MF CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o.d -o CMakeFiles/RascalMCES.dir/PartitionSet.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/PartitionSet.cpp [ 71%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/RascalMCES.dir/RascalResult.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/RascalMCES/RascalResult.cpp [ 72%] Linking CXX shared library ../../../lib/libRDKitDetermineBonds.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds && /usr/bin/cmake -E cmake_link_script CMakeFiles/DetermineBonds.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/DetermineBonds.dir/link.d -Wl,-soname,libRDKitDetermineBonds.so.1 -o ../../../lib/libRDKitDetermineBonds.so.1.2026.03.2 CMakeFiles/DetermineBonds.dir/DetermineBonds.cpp.o ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDetermineBonds.so.1.2026.03.2 ../../../lib/libRDKitDetermineBonds.so.1 ../../../lib/libRDKitDetermineBonds.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 72%] Built target DetermineBonds [ 72%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawText.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/DrawText.cpp [ 72%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextNotFT.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/DrawTextNotFT.cpp make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/DependInfo.cmake "--color=" molInterchangeCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 72%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeCatchTest.dir/molinterchange_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolInterchange/molinterchange_catch.cpp [ 72%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/DrawTextSVG.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake "--color=" rdmolops make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 72%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/rdmolops.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Wrap/rdmolops.cpp [ 73%] Linking CXX executable molInterchangeTest1 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/molInterchangeTest1.dir/link.txt --verbose=1 [ 73%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DJS.cpp make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake "--color=" molStandardizeTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 73%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolStandardize/test1.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 73%] Built target molInterchangeTest1 [ 73%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/MolOps.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/MolOps.cpp.o -MF CMakeFiles/rdmolops.dir/MolOps.cpp.o.d -o CMakeFiles/rdmolops.dir/MolOps.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/MolOps.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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/DependInfo.cmake "--color=" molNormalizeTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 73%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolStandardize/testNormalize.cpp [ 73%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextJS.cpp [ 74%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DCairo.cpp [ 74%] Linking CXX executable molInterchangeCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 74%] Built target molInterchangeCatchTest [ 74%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Wrap/ChiralityOps.cpp [ 74%] Linking CXX shared library ../../../lib/libRDKitRascalMCES.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/cmake -E cmake_link_script CMakeFiles/RascalMCES.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/RascalMCES.dir/link.d -Wl,-soname,libRDKitRascalMCES.so.1 -o ../../../lib/libRDKitRascalMCES.so.1.2026.03.2 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.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitRascalMCES.so.1.2026.03.2 ../../../lib/libRDKitRascalMCES.so.1 ../../../lib/libRDKitRascalMCES.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 74%] Built target RascalMCES 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake "--color=" molValidateTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 74%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/testValidate.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolStandardize/testValidate.cpp [ 74%] Linking CXX executable molNormalizeTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molNormalizeTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/molNormalizeTest.dir/link.d CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o -o molNormalizeTest ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 74%] Built target molNormalizeTest 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/DependInfo.cmake "--color=" molChargeTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 74%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/testCharge.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolStandardize/testCharge.cpp [ 75%] Linking CXX executable molStandardizeTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Built target molStandardizeTest 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/DependInfo.cmake "--color=" molTautomerTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 75%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolStandardize/testTautomer.cpp [ 75%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextCairo.cpp [ 75%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/DrawTextFT.cpp [ 75%] Linking CXX executable molValidateTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molValidateTest.dir/link.txt --verbose=1 [ 75%] Linking CXX executable molChargeTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molChargeTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/molValidateTest.dir/link.d CMakeFiles/molValidateTest.dir/testValidate.cpp.o -o molValidateTest ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Built target molValidateTest 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/DependInfo.cmake "--color=" molStandardizeSmallTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolStandardize/test2.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Built target molChargeTest [ 75%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextFTSVG.cpp [ 75%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/DrawTextFTJS.cpp [ 75%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o -MF CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o.d -o CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextFTCairo.cpp make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/DependInfo.cmake "--color=" molFragmentTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/testFragment.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolStandardize/testFragment.cpp make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake "--color=" molStandardizeCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolStandardize/catch_tests.cpp [ 75%] Linking CXX executable molStandardizeSmallTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/molStandardizeSmallTest.dir/link.d CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -o molStandardizeSmallTest ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizePipelineTest.dir/DependInfo.cmake "--color=" molStandardizePipelineTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 75%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizePipelineTest.dir/testPipeline.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolStandardize/testPipeline.cpp [ 75%] Linking CXX shared library ../../../lib/libRDKitMolDraw2D.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolDraw2D.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MolDraw2D.dir/link.d -Wl,-soname,libRDKitMolDraw2D.so.1 -o ../../../lib/libRDKitMolDraw2D.so.1.2026.03.2 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/MolDrawOptionsJSONParsers.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 CMakeFiles/MolDraw2D.dir/DrawMolMCHCircleAndLine.cpp.o CMakeFiles/MolDraw2D.dir/DrawMolMCHLasso.cpp.o CMakeFiles/MolDraw2D.dir/DrawShape.cpp.o CMakeFiles/MolDraw2D.dir/DrawText.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextNotFT.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DCairo.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextCairo.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFTCairo.cpp.o ../../../lib/libRDKitChemReactions.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libfreetype.so ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcairo.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolDraw2D.so.1.2026.03.2 ../../../lib/libRDKitMolDraw2D.so.1 ../../../lib/libRDKitMolDraw2D.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Built target MolDraw2D make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/DependInfo.cmake "--color=" rdMolStandardize make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/Wrap/rdMolStandardize.cpp [ 75%] Linking CXX executable molTautomerTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/molTautomerTest.dir/link.d CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o -o molTautomerTest ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Built target molTautomerTest make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/DependInfo.cmake "--color=" ScaffoldNetwork make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Building CXX object Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ScaffoldNetwork/ScaffoldNetwork.cpp [ 75%] Linking CXX executable molFragmentTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/molFragmentTest.dir/link.d CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -o molFragmentTest ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Built target molFragmentTest [ 75%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Validate.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/Wrap/Validate.cpp [ 75%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Charge.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/Wrap/Charge.cpp [ 75%] Linking CXX shared library ../../../lib/libRDKitScaffoldNetwork.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/cmake -E cmake_link_script CMakeFiles/ScaffoldNetwork.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ScaffoldNetwork.dir/link.d -Wl,-soname,libRDKitScaffoldNetwork.so.1 -o ../../../lib/libRDKitScaffoldNetwork.so.1.2026.03.2 CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitScaffoldNetwork.so.1.2026.03.2 ../../../lib/libRDKitScaffoldNetwork.so.1 ../../../lib/libRDKitScaffoldNetwork.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Built target ScaffoldNetwork [ 75%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/Wrap/Fragment.cpp [ 75%] Linking CXX executable molStandardizePipelineTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizePipelineTest.dir/link.txt --verbose=1 [ 75%] Linking CXX shared module ../../../rdkit/Chem/rdmolops.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdmolops.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Built target molStandardizePipelineTest [ 75%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolStandardize/Wrap/Normalize.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdmolops.dir/link.d -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Built target rdmolops 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/DependInfo.cmake "--color=" testMolEnumerator make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 75%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolEnumerator/enumerator_catch.cpp [ 76%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Metal.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Metal.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Metal.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Metal.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Wrap/Metal.cpp [ 76%] Linking CXX executable molStandardizeCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/DependInfo.cmake "--color=" rdMolEnumerator make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 76%] Building CXX object Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolEnumerator/Wrap/rdMolEnumerator.cpp [ 76%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Tautomer.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp [ 76%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Pipeline.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Pipeline.cpp.o -MF CMakeFiles/rdMolStandardize.dir/Pipeline.cpp.o.d -o CMakeFiles/rdMolStandardize.dir/Pipeline.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Wrap/Pipeline.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/DependInfo.cmake "--color=" testAbbreviations make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 77%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/Abbreviations/catch_tests.cpp make -f Code/GraphMol/MolProcessing/CMakeFiles/MolProcessing.dir/build.make Code/GraphMol/MolProcessing/CMakeFiles/MolProcessing.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolProcessing /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing/CMakeFiles/MolProcessing.dir/DependInfo.cmake "--color=" MolProcessing make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolProcessing/CMakeFiles/MolProcessing.dir/build.make Code/GraphMol/MolProcessing/CMakeFiles/MolProcessing.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 77%] Building CXX object Code/GraphMol/MolProcessing/CMakeFiles/MolProcessing.dir/MolProcessing.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMolProcessing_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLPROCESSING_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MolProcessing/CMakeFiles/MolProcessing.dir/MolProcessing.cpp.o -MF CMakeFiles/MolProcessing.dir/MolProcessing.cpp.o.d -o CMakeFiles/MolProcessing.dir/MolProcessing.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolProcessing/MolProcessing.cpp [ 77%] Linking CXX shared module ../../../../rdkit/Chem/rdMolEnumerator.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolEnumerator.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolEnumerator.dir/link.d -o ../../../../rdkit/Chem/rdMolEnumerator.so CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o ../../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 77%] Built target rdMolEnumerator make -f Code/GraphMol/MolInteractionFields/CMakeFiles/testMIF.dir/build.make Code/GraphMol/MolInteractionFields/CMakeFiles/testMIF.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInteractionFields /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields/CMakeFiles/testMIF.dir/DependInfo.cmake "--color=" testMIF make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolInteractionFields/CMakeFiles/testMIF.dir/build.make Code/GraphMol/MolInteractionFields/CMakeFiles/testMIF.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 78%] Building CXX object Code/GraphMol/MolInteractionFields/CMakeFiles/testMIF.dir/testMIF.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/MolInteractionFields/CMakeFiles/testMIF.dir/testMIF.cpp.o -MF CMakeFiles/testMIF.dir/testMIF.cpp.o.d -o CMakeFiles/testMIF.dir/testMIF.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInteractionFields/testMIF.cpp [ 79%] Linking CXX shared library ../../../lib/libRDKitMolProcessing.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolProcessing.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MolProcessing.dir/link.d -Wl,-soname,libRDKitMolProcessing.so.1 -o ../../../lib/libRDKitMolProcessing.so.1.2026.03.2 CMakeFiles/MolProcessing.dir/MolProcessing.cpp.o ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitRDStreams.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolProcessing.so.1.2026.03.2 ../../../lib/libRDKitMolProcessing.so.1 ../../../lib/libRDKitMolProcessing.so [ 79%] Linking CXX executable testMolEnumerator cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolEnumerator.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 79%] Built target MolProcessing make -f Code/Bench/CMakeFiles/bench.dir/build.make Code/Bench/CMakeFiles/bench.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/Bench /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench/CMakeFiles/bench.dir/DependInfo.cmake "--color=" bench make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/Bench/CMakeFiles/bench.dir/build.make Code/Bench/CMakeFiles/bench.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 79%] Building CXX object Code/Bench/CMakeFiles/bench.dir/bench_common.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Bench/CMakeFiles/bench.dir/bench_common.cpp.o -MF CMakeFiles/bench.dir/bench_common.cpp.o.d -o CMakeFiles/bench.dir/bench_common.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Bench/bench_common.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testMolEnumerator.dir/link.d CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o -o testMolEnumerator ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 79%] Built target testMolEnumerator make -f Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/build.make Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MarvinParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/DependInfo.cmake "--color=" MarvinParser make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/build.make Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 79%] Building CXX object Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMarvinParser_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MARVINPARSER_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o -MF CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o.d -o CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MarvinParse/MarvinParser.cpp [ 79%] Building CXX object Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMarvinParser_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MARVINPARSER_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinWriter.cpp.o -MF CMakeFiles/MarvinParser.dir/MarvinWriter.cpp.o.d -o CMakeFiles/MarvinParser.dir/MarvinWriter.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MarvinParse/MarvinWriter.cpp [ 79%] Linking CXX executable testAbbreviations cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAbbreviations.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testAbbreviations.dir/link.d CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o -o testAbbreviations ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitAbbreviations.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 79%] Built target testAbbreviations [ 79%] Building CXX object Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DMarvinParser_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MARVINPARSER_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MarvinParse/CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o -MF CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o.d -o CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MarvinParse/MarvinDefs.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-202603.2/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp:11: 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); | ^~~~~~~~~~~~~~~~~~~~ [ 79%] Building CXX object Code/Bench/CMakeFiles/bench.dir/descriptors.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Bench/CMakeFiles/bench.dir/descriptors.cpp.o -MF CMakeFiles/bench.dir/descriptors.cpp.o.d -o CMakeFiles/bench.dir/descriptors.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Bench/descriptors.cpp 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_); | ^ [ 79%] Linking CXX executable testMIF cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testMIF.dir/link.d CMakeFiles/testMIF.dir/testMIF.cpp.o -o testMIF ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolInteractionFields.so.1.2026.03.2 ../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 ../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 79%] Built target testMIF [ 79%] Building CXX object Code/Bench/CMakeFiles/bench.dir/fingerprint.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Bench/CMakeFiles/bench.dir/fingerprint.cpp.o -MF CMakeFiles/bench.dir/fingerprint.cpp.o.d -o CMakeFiles/bench.dir/fingerprint.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Bench/fingerprint.cpp [ 79%] Linking CXX shared module ../../../../rdkit/Chem/MolStandardize/rdMolStandardize.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolStandardize.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolStandardize.dir/link.d -o ../../../../rdkit/Chem/MolStandardize/rdMolStandardize.so CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o CMakeFiles/rdMolStandardize.dir/Validate.cpp.o CMakeFiles/rdMolStandardize.dir/Charge.cpp.o CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o CMakeFiles/rdMolStandardize.dir/Metal.cpp.o CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o CMakeFiles/rdMolStandardize.dir/Pipeline.cpp.o ../../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 79%] Built target rdMolStandardize make -f Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake "--color=" TautomerQuery make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 79%] Building CXX object Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKIT_DYN_LINK -DRDKIT_TAUTOMERQUERY_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_BUILD_XYZ2MOL_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DTautomerQuery_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o -MF CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o.d -o CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/TautomerQuery/TautomerQuery.cpp [ 79%] Building CXX object Code/Bench/CMakeFiles/bench.dir/meta.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Bench/CMakeFiles/bench.dir/meta.cpp.o -MF CMakeFiles/bench.dir/meta.cpp.o.d -o CMakeFiles/bench.dir/meta.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Bench/meta.cpp [ 79%] Building CXX object Code/Bench/CMakeFiles/bench.dir/mol.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Bench/CMakeFiles/bench.dir/mol.cpp.o -MF CMakeFiles/bench.dir/mol.cpp.o.d -o CMakeFiles/bench.dir/mol.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Bench/mol.cpp make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/DependInfo.cmake "--color=" testO3AAlign make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 79%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolAlign/testO3AAlign.cpp [ 79%] Building CXX object Code/Bench/CMakeFiles/bench.dir/molops.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Bench/CMakeFiles/bench.dir/molops.cpp.o -MF CMakeFiles/bench.dir/molops.cpp.o.d -o CMakeFiles/bench.dir/molops.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Bench/molops.cpp [ 79%] Building CXX object Code/Bench/CMakeFiles/bench.dir/pickle.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Bench/CMakeFiles/bench.dir/pickle.cpp.o -MF CMakeFiles/bench.dir/pickle.cpp.o.d -o CMakeFiles/bench.dir/pickle.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Bench/pickle.cpp [ 79%] Linking CXX shared library ../../../lib/libRDKitTautomerQuery.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_link_script CMakeFiles/TautomerQuery.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/TautomerQuery.dir/link.d -Wl,-soname,libRDKitTautomerQuery.so.1 -o ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1 ../../../lib/libRDKitTautomerQuery.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 79%] Built target TautomerQuery [ 79%] Building CXX object Code/Bench/CMakeFiles/bench.dir/smiles.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Bench/CMakeFiles/bench.dir/smiles.cpp.o -MF CMakeFiles/bench.dir/smiles.cpp.o.d -o CMakeFiles/bench.dir/smiles.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Bench/smiles.cpp [ 80%] Building CXX object Code/Bench/CMakeFiles/bench.dir/stereo.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Bench/CMakeFiles/bench.dir/stereo.cpp.o -MF CMakeFiles/bench.dir/stereo.cpp.o.d -o CMakeFiles/bench.dir/stereo.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Bench/stereo.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake "--color=" rdMolAlign make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 80%] Building CXX object Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp [ 80%] Building CXX object Code/Bench/CMakeFiles/bench.dir/substruct_match.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Bench/CMakeFiles/bench.dir/substruct_match.cpp.o -MF CMakeFiles/bench.dir/substruct_match.cpp.o.d -o CMakeFiles/bench.dir/substruct_match.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Bench/substruct_match.cpp [ 80%] Linking CXX shared library ../../../lib/libRDKitMarvinParser.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/MarvinParser.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/MarvinParser.dir/link.d -Wl,-soname,libRDKitMarvinParser.so.1 -o ../../../lib/libRDKitMarvinParser.so.1.2026.03.2 CMakeFiles/MarvinParser.dir/MarvinParser.cpp.o CMakeFiles/MarvinParser.dir/MarvinWriter.cpp.o CMakeFiles/MarvinParser.dir/MarvinDefs.cpp.o ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMarvinParser.so.1.2026.03.2 ../../../lib/libRDKitMarvinParser.so.1 ../../../lib/libRDKitMarvinParser.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 80%] Built target MarvinParser 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake "--color=" moldraw2DTest1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolDraw2D/test1.cpp [ 81%] Linking CXX executable testO3AAlign cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target testO3AAlign [ 81%] Building CXX object Code/Bench/CMakeFiles/bench.dir/inchi.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Bench/CMakeFiles/bench.dir/inchi.cpp.o -MF CMakeFiles/bench.dir/inchi.cpp.o.d -o CMakeFiles/bench.dir/inchi.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/Bench/inchi.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake "--color=" moldraw2DTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolDraw2D/catch_tests.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake "--color=" moldraw2DRxnTest1 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/cairo -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -MF CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o.d -o CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/rxn_test1.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake "--color=" rdMolDraw2D make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/usr/include/freetype2 -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp [ 81%] Linking CXX executable bench cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench && /usr/bin/cmake -E cmake_link_script CMakeFiles/bench.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/bench.dir/link.d CMakeFiles/bench.dir/bench_common.cpp.o CMakeFiles/bench.dir/descriptors.cpp.o CMakeFiles/bench.dir/fingerprint.cpp.o CMakeFiles/bench.dir/meta.cpp.o CMakeFiles/bench.dir/mol.cpp.o CMakeFiles/bench.dir/molops.cpp.o CMakeFiles/bench.dir/pickle.cpp.o CMakeFiles/bench.dir/smiles.cpp.o CMakeFiles/bench.dir/stereo.cpp.o CMakeFiles/bench.dir/substruct_match.cpp.o CMakeFiles/bench.dir/inchi.cpp.o -o bench ../RDGeneral/librdkitCatch.a ../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../lib/libRDKitRDInchiLib.so.1.2026.03.2 /usr/lib/libCatch2.a ../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../lib/libRDKitChemTransforms.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../lib/libRDKitSubgraphs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libinchi.so ../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../lib/libRDKitAlignment.so.1.2026.03.2 ../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target bench 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake "--color=" testFMCS make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FMCS/testFMCS_Unit.cpp [ 81%] Linking CXX executable moldraw2DRxnTest1 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcairo.so /usr/lib/x86_64-linux-gnu/libfreetype.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target moldraw2DRxnTest1 make -f Code/GraphMol/FMCS/CMakeFiles/testFMCSCatch.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCSCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCSCatch.dir/DependInfo.cmake "--color=" testFMCSCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/FMCS/CMakeFiles/testFMCSCatch.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCSCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/testFMCSCatch.dir/testFMCS_catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/testFMCSCatch.dir/testFMCS_catch_tests.cpp.o -MF CMakeFiles/testFMCSCatch.dir/testFMCS_catch_tests.cpp.o.d -o CMakeFiles/testFMCSCatch.dir/testFMCS_catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/testFMCS_catch_tests.cpp [ 81%] Linking CXX shared module ../../../../rdkit/Chem/rdMolAlign.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolAlign.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolAlign.dir/link.d -o ../../../../rdkit/Chem/rdMolAlign.so CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o ../../../../lib/libRDKitO3AAlign.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target rdMolAlign 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake "--color=" rdFMCS make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp [ 81%] Linking CXX executable testFMCSCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFMCSCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testFMCSCatch.dir/link.d CMakeFiles/testFMCSCatch.dir/testFMCS_catch_tests.cpp.o -o testFMCSCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitFMCS.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target testFMCSCatch 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/Test /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/Test /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake "--color=" FMCStest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/testFMCS.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/Test && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/FMCS/Test/testFMCS.cpp [ 81%] Linking CXX executable FMCStest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/Test && /usr/bin/cmake -E cmake_link_script CMakeFiles/FMCStest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/FMCStest.dir/link.d CMakeFiles/FMCStest.dir/testFMCS.cpp.o -o FMCStest ../../../../lib/libRDKitFMCS.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target FMCStest 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake "--color=" testMMPA make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MMPA/MMPA_UnitTest.cpp [ 81%] Linking CXX shared module ../../../../rdkit/Chem/rdFMCS.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFMCS.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdFMCS.dir/link.d -o ../../../../rdkit/Chem/rdFMCS.so CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o ../../../../lib/libRDKitFMCS.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target rdFMCS 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MMPA/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake "--color=" rdMMPA make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o -MF CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o.d -o CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp [ 81%] Linking CXX executable testFMCS cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target testFMCS 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/DependInfo.cmake "--color=" testRascalMCES make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/build.make Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/testRascalMCES.dir/mces_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/RascalMCES/mces_catch.cpp [ 81%] Linking CXX executable moldraw2DTest1 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcairo.so /usr/lib/x86_64-linux-gnu/libfreetype.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target moldraw2DTest1 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/DependInfo.cmake "--color=" testRascalCluster make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/RascalMCES/CMakeFiles/testRascalCluster.dir/mces_cluster_catch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/RascalMCES/mces_cluster_catch.cpp [ 81%] Linking CXX executable testMMPA cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMPA.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target testMMPA 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/DependInfo.cmake "--color=" rdRascalMCES make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/build.make Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/RascalMCES/Wrap/CMakeFiles/rdRascalMCES.dir/rdRascalMCES.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdRascalMCES_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/RascalMCES/Wrap/rdRascalMCES.cpp [ 81%] Linking CXX shared module ../../../../rdkit/Chem/rdMMPA.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMMPA.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMMPA.dir/link.d -o ../../../../rdkit/Chem/rdMMPA.so CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o ../../../../lib/libRDKitMMPA.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target rdMMPA 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GeneralizedSubstruct /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/DependInfo.cmake "--color=" GeneralizedSubstruct make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/XQMol.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/GeneralizedSubstruct/XQMol.cpp [ 81%] Linking CXX executable testRascalCluster cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target testRascalCluster make -f Code/GraphMol/EnumerateStereoisomers/CMakeFiles/testEnumerateStereoisomers.dir/build.make Code/GraphMol/EnumerateStereoisomers/CMakeFiles/testEnumerateStereoisomers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/EnumerateStereoisomers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/CMakeFiles/testEnumerateStereoisomers.dir/DependInfo.cmake "--color=" testEnumerateStereoisomers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/EnumerateStereoisomers/CMakeFiles/testEnumerateStereoisomers.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/EnumerateStereoisomers/catch_tests.cpp [ 81%] Linking CXX shared module ../../../../rdkit/Chem/Draw/rdMolDraw2D.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolDraw2D.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolDraw2D.dir/link.d -o ../../../../rdkit/Chem/Draw/rdMolDraw2D.so CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o ../../../../lib/libRDKitMolDraw2D.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcairo.so /usr/lib/x86_64-linux-gnu/libfreetype.so /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 81%] Built target rdMolDraw2D 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/EnumerateStereoisomers/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/Wrap/CMakeFiles/rdEnumerateStereoisomers.dir/DependInfo.cmake "--color=" rdEnumerateStereoisomers make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 81%] Building CXX object Code/GraphMol/EnumerateStereoisomers/Wrap/CMakeFiles/rdEnumerateStereoisomers.dir/rdEnumerateStereoisomers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/EnumerateStereoisomers/Wrap/rdEnumerateStereoisomers.cpp [ 82%] Linking CXX executable testRascalMCES cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 82%] Built target testRascalMCES make -f Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/DependInfo.cmake "--color=" testCIPLabeler make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 82%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/CIPLabeler/catch_tests.cpp [ 83%] Linking CXX shared module ../../../../rdkit/Chem/rdRascalMCES.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdRascalMCES.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdRascalMCES.dir/link.d -o ../../../../rdkit/Chem/rdRascalMCES.so CMakeFiles/rdRascalMCES.dir/rdRascalMCES.cpp.o ../../../../lib/libRDKitRascalMCES.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 83%] Built target rdRascalMCES make -f Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/DependInfo.cmake "--color=" deprotectTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 83%] Building CXX object Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/Deprotect/deprotectTest.cpp [ 83%] Building CXX object Code/GraphMol/GeneralizedSubstruct/CMakeFiles/GeneralizedSubstruct.dir/TextIO.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/GeneralizedSubstruct/TextIO.cpp [ 83%] Linking CXX shared module ../../../../rdkit/Chem/rdEnumerateStereoisomers.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdEnumerateStereoisomers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdEnumerateStereoisomers.dir/link.d -o ../../../../rdkit/Chem/rdEnumerateStereoisomers.so CMakeFiles/rdEnumerateStereoisomers.dir/rdEnumerateStereoisomers.cpp.o ../../../../lib/libRDKitEnumerateStereoisomers.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 83%] Built target rdEnumerateStereoisomers [ 84%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/CIPMol.cpp.o -MF CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/CIPMol.cpp [ 85%] Linking CXX executable testEnumerateStereoisomers cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 CMakeFiles/testEnumerateStereoisomers.dir/catch_tests.cpp.o -o testEnumerateStereoisomers ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitEnumerateStereoisomers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 85%] Built target testEnumerateStereoisomers 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Deprotect/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DependInfo.cmake "--color=" rdDeprotect make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 85%] Building CXX object Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdDeprotect_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/rdDeprotect.cpp.o -MF CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o.d -o CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Deprotect/Wrap/rdDeprotect.cpp [ 85%] Linking CXX executable deprotectTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/cmake -E cmake_link_script CMakeFiles/deprotectTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/deprotectTest.dir/link.d CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o -o deprotectTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitDeprotect.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 85%] Built target deprotectTest make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/DependInfo.cmake "--color=" RGroupDecomposition [ 85%] Building CXX object Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdDeprotect_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Deprotect/Wrap/DeprotectWrap.cpp make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 85%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/RGroupDecomp.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupDecomp.cpp [ 85%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/CIPLabeler.cpp.o -MF CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/CIPLabeler.cpp [ 85%] Linking CXX shared library ../../../lib/libRDKitGeneralizedSubstruct.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/GeneralizedSubstruct.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/GeneralizedSubstruct.dir/link.d -Wl,-soname,libRDKitGeneralizedSubstruct.so.1 -o ../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 CMakeFiles/GeneralizedSubstruct.dir/XQMol.cpp.o CMakeFiles/GeneralizedSubstruct.dir/TextIO.cpp.o ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 ../../../lib/libRDKitGeneralizedSubstruct.so.1 ../../../lib/libRDKitGeneralizedSubstruct.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 85%] Built target GeneralizedSubstruct make -f Code/GraphMol/DetermineBonds/CMakeFiles/determineBondsCatchTest.dir/build.make Code/GraphMol/DetermineBonds/CMakeFiles/determineBondsCatchTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DetermineBonds /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds/CMakeFiles/determineBondsCatchTest.dir/DependInfo.cmake "--color=" determineBondsCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/DetermineBonds/CMakeFiles/determineBondsCatchTest.dir/build.make Code/GraphMol/DetermineBonds/CMakeFiles/determineBondsCatchTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 85%] Building CXX object Code/GraphMol/DetermineBonds/CMakeFiles/determineBondsCatchTest.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/DetermineBonds/CMakeFiles/determineBondsCatchTest.dir/catch_tests.cpp.o -MF CMakeFiles/determineBondsCatchTest.dir/catch_tests.cpp.o.d -o CMakeFiles/determineBondsCatchTest.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DetermineBonds/catch_tests.cpp [ 85%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/CIPLabeler/Mancude.cpp [ 85%] Linking CXX executable moldraw2DTestCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTestCatch.dir/link.txt --verbose=1 [ 85%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/RGroupDecompData.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupDecompData.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/moldraw2DTestCatch.dir/link.d CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -o moldraw2DTestCatch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMolDraw2D.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libcairo.so /usr/lib/x86_64-linux-gnu/libfreetype.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 85%] Built target moldraw2DTestCatch [ 85%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/CIPLabeler/Digraph.cpp [ 85%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupData.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/RGroupDecomposition/RGroupData.cpp [ 86%] Linking CXX shared module ../../../../rdkit/Chem/rdDeprotect.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDeprotect.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdDeprotect.dir/link.d -o ../../../../rdkit/Chem/rdDeprotect.so CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o ../../../../lib/libRDKitDeprotect.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 86%] Built target rdDeprotect [ 86%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Node.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/CIPLabeler/Node.cpp [ 86%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Edge.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/CIPLabeler/Edge.cpp [ 86%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/RGroupDecomposition/RGroupUtils.cpp [ 86%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupCore.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/RGroupDecomposition/RGroupCore.cpp [ 86%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Sort.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/CIPLabeler/Sort.cpp [ 86%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/CIPLabeler/configs/Configuration.cpp [ 86%] Linking CXX executable determineBondsCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitDistGeomHelpers.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitDistGeometry.so.1.2026.03.2 ../../../lib/libRDKitForceFieldHelpers.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitForceField.so.1.2026.03.2 ../../../lib/libRDKitOptimizer.so.1.2026.03.2 ../../../lib/libRDKitTrajectory.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 86%] Built target determineBondsCatchTest 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DetermineBonds/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds/Wrap/CMakeFiles/rdDetermineBonds.dir/DependInfo.cmake "--color=" rdDetermineBonds make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 86%] Building CXX object Code/GraphMol/DetermineBonds/Wrap/CMakeFiles/rdDetermineBonds.dir/rdDetermineBonds.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/DetermineBonds/Wrap/rdDetermineBonds.cpp [ 86%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/DependInfo.cmake "--color=" rdchem make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 87%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/rdchem.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Wrap/rdchem.cpp [ 87%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake "--color=" rdmolfiles make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 88%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o -MF CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o.d -o CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/rdmolfiles.cpp [ 88%] Linking CXX shared module ../../../../rdkit/Chem/rdDetermineBonds.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDetermineBonds.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdDetermineBonds.dir/link.d -o ../../../../rdkit/Chem/rdDetermineBonds.so CMakeFiles/rdDetermineBonds.dir/rdDetermineBonds.cpp.o ../../../../lib/libRDKitDetermineBonds.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 88%] Built target rdDetermineBonds [ 88%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/RGroupDecompParams.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupDecompParams.cpp [ 89%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/AtropisomerBond.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/CIPLabeler/configs/AtropisomerBond.cpp [ 89%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/ForwardSDMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp [ 89%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Rule1a.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule1a.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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/DependInfo.cmake "--color=" testScaffoldNetwork make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 89%] Building CXX object Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -MF CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o.d -o CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ScaffoldNetwork/catch_tests.cpp [ 89%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/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-202603.2/Code/GraphMol/CIPLabeler/rules/Rule1b.cpp [ 89%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/CIPLabeler/rules/Rule2.cpp In file included from /usr/include/c++/15/string:56, from /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/Invariant.h:17, from /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RDKitBase.h:21, from /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/rdchem.cpp:13: 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-202603.2/Code/GraphMol/Wrap/rdchem.cpp:105:68: /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-202603.2/Code/GraphMol/Wrap/rdchem.cpp: In function ‘PyObject* createExceptionClass(const char*, PyObject*)’: /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/rdchem.cpp:105:68: note: ‘’ declared here 105 | python::extract(python::scope().attr("__name__")); | ^ [ 89%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupScore.cpp [ 89%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Rule3.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule3.cpp [ 89%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Rule4a.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule4a.cpp make -f Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ScaffoldNetwork/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake "--color=" rdScaffoldNetwork make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 89%] Building CXX object Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdScaffoldNetwork_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Wrap/CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o -MF CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o.d -o CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ScaffoldNetwork/Wrap/rdScaffoldNetwork.cpp [ 89%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4b.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Rule4b.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule4b.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule4b.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule4b.cpp [ 89%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Table.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Wrap/Table.cpp [ 89%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Rule4c.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule4c.cpp [ 89%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupFingerprintScore.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/RGroupFingerprintScore.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupFingerprintScore.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupFingerprintScore.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupFingerprintScore.cpp [ 89%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Rule5.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule5.cpp [ 89%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Rule5New.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule5New.cpp [ 89%] Linking CXX executable testScaffoldNetwork cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/cmake -E cmake_link_script CMakeFiles/testScaffoldNetwork.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testScaffoldNetwork.dir/link.d CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -o testScaffoldNetwork ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitScaffoldNetwork.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 89%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/Rule6.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule6.cpp [ 89%] Built target testScaffoldNetwork [ 90%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/SequenceRule.cpp.o -MF CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o.d -o CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/SequenceRule.cpp [ 90%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupGa.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/RGroupGa.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupGa.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupGa.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupGa.cpp [ 90%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Atom.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Atom.cpp.o -MF CMakeFiles/rdchem.dir/Atom.cpp.o.d -o CMakeFiles/rdchem.dir/Atom.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/Atom.cpp make -f Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/build.make Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GeneralizedSubstruct /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/DependInfo.cmake "--color=" generalizedSubstructCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/build.make Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 90%] Building CXX object Code/GraphMol/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/GeneralizedSubstruct/CMakeFiles/generalizedSubstructCatch.dir/catch_tests.cpp.o -MF CMakeFiles/generalizedSubstructCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/generalizedSubstructCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GeneralizedSubstruct/catch_tests.cpp [ 90%] Linking CXX executable testCIPLabeler cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCIPLabeler.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testCIPLabeler.dir/link.d CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o CMakeFiles/testCIPLabeler.dir/Node.cpp.o CMakeFiles/testCIPLabeler.dir/Edge.cpp.o CMakeFiles/testCIPLabeler.dir/Sort.cpp.o CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o CMakeFiles/testCIPLabeler.dir/configs/AtropisomerBond.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule4b.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o -o testCIPLabeler ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMarvinParser.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 90%] Built target testCIPLabeler [ 90%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/MaeMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/MaeMolSupplier.cpp [ 90%] Linking CXX shared module ../../../../rdkit/Chem/Scaffolds/rdScaffoldNetwork.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdScaffoldNetwork.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdScaffoldNetwork.dir/link.d -o ../../../../rdkit/Chem/Scaffolds/rdScaffoldNetwork.so CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o ../../../../lib/libRDKitScaffoldNetwork.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 90%] Built target rdScaffoldNetwork [ 90%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Bond.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Wrap/Bond.cpp [ 90%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompJSONParsers.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/RGroupDecompJSONParsers.cpp.o -MF CMakeFiles/RGroupDecomposition.dir/RGroupDecompJSONParsers.cpp.o.d -o CMakeFiles/RGroupDecomposition.dir/RGroupDecompJSONParsers.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupDecompJSONParsers.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GeneralizedSubstruct/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/DependInfo.cmake "--color=" rdGeneralizedSubstruct make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 90%] Building CXX object Code/GraphMol/GeneralizedSubstruct/Wrap/CMakeFiles/rdGeneralizedSubstruct.dir/rdGeneralizedSubstruct.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/GeneralizedSubstruct/Wrap/rdGeneralizedSubstruct.cpp [ 90%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MaeWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Wrap/MaeWriter.cpp [ 90%] Linking CXX executable generalizedSubstructCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/generalizedSubstructCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 90%] Built target generalizedSubstructCatch [ 90%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Mol.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Mol.cpp.o -MF CMakeFiles/rdchem.dir/Mol.cpp.o.d -o CMakeFiles/rdchem.dir/Mol.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/Mol.cpp [ 91%] Linking CXX shared library ../../../lib/libRDKitRGroupDecomposition.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/RGroupDecomposition.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/RGroupDecomposition.dir/link.d -Wl,-soname,libRDKitRGroupDecomposition.so.1 -o ../../../lib/libRDKitRGroupDecomposition.so.1.2026.03.2 CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupDecompData.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupData.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupCore.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupFingerprintScore.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupGa.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupDecompJSONParsers.cpp.o ../../../lib/libRDKitFMCS.so.1.2026.03.2 ../../../lib/libRDKitga.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitRGroupDecomposition.so.1.2026.03.2 ../../../lib/libRDKitRGroupDecomposition.so.1 ../../../lib/libRDKitRGroupDecomposition.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 91%] Built target RGroupDecomposition [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/SDMolSupplier.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolProcessing /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing/CMakeFiles/testMolProcessing.dir/DependInfo.cmake "--color=" testMolProcessing make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 91%] Building CXX object Code/GraphMol/MolProcessing/CMakeFiles/testMolProcessing.dir/processing_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MolProcessing/processing_tests.cpp [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/TDTMolSupplier.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolProcessing/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing/Wrap/CMakeFiles/rdMolProcessing.dir/DependInfo.cmake "--color=" rdMolProcessing make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 91%] Building CXX object Code/GraphMol/MolProcessing/Wrap/CMakeFiles/rdMolProcessing.dir/rdMolProcessing.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/MolProcessing/Wrap/rdMolProcessing.cpp [ 91%] Linking CXX shared module ../../../../rdkit/Chem/rdGeneralizedSubstruct.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdGeneralizedSubstruct.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdGeneralizedSubstruct.dir/link.d -o ../../../../rdkit/Chem/rdGeneralizedSubstruct.so CMakeFiles/rdGeneralizedSubstruct.dir/rdGeneralizedSubstruct.cpp.o ../../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 91%] Built target rdGeneralizedSubstruct [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/SmilesMolSupplier.cpp [ 91%] Linking CXX executable testMolProcessing cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDStreams.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 91%] Built target testMolProcessing [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Conformer.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/Wrap/Conformer.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/DependInfo.cmake "--color=" rdkit make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 91%] Building CXX object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/adapter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -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-202603.2/Code/PgSQL/rdkit/adapter.cpp [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/RingInfo.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/RingInfo.cpp.o -MF CMakeFiles/rdchem.dir/RingInfo.cpp.o.d -o CMakeFiles/rdchem.dir/RingInfo.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/RingInfo.cpp [ 91%] Linking CXX shared module ../../../../rdkit/Chem/rdMolProcessing.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolProcessing.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdMolProcessing.dir/link.d -o ../../../../rdkit/Chem/rdMolProcessing.so CMakeFiles/rdMolProcessing.dir/rdMolProcessing.cpp.o ../../../../lib/libRDKitMolProcessing.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitRDStreams.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 91%] Built target rdMolProcessing [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/SmilesWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/SmilesWriter.cpp /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/adapter.cpp: In function ‘void* makeAvalonBFP(CROMol, bool, unsigned int)’: /build/reproducible-path/rdkit-202603.2/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-202603.2/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-202603.2/Code/PgSQL/rdkit/adapter.cpp:1638:44: warning: unused parameter ‘bitFlags’ [-Wunused-parameter] 1638 | unsigned int bitFlags) { | ~~~~~~~~~~~~~^~~~~~~~ [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/EditableMol.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/EditableMol.cpp.o -MF CMakeFiles/rdchem.dir/EditableMol.cpp.o.d -o CMakeFiles/rdchem.dir/EditableMol.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/EditableMol.cpp [ 91%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bfp_op.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/bfp_op.c [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/SDWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/SDWriter.cpp [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MonomerInfo.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MonomerInfo.cpp.o -MF CMakeFiles/rdchem.dir/MonomerInfo.cpp.o.d -o CMakeFiles/rdchem.dir/MonomerInfo.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/MonomerInfo.cpp [ 91%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/cache.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/cache.c [ 91%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/guc.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/guc.c [ 91%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/low_gist.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/low_gist.c [ 91%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/TDTWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/TDTWriter.cpp [ 92%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/mol_op.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -std=gnu99 -fPIC -MD -MT Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/mol_op.c.o -MF CMakeFiles/rdkit.dir/mol_op.c.o.d -o CMakeFiles/rdkit.dir/mol_op.c.o -c /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/mol_op.c [ 92%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/rdkit_gist.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/rdkit_gist.c [ 92%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bfp_gist.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/bfp_gist.c [ 93%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o -MF CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o.d -o CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/PDBWriter.cpp [ 93%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bfp_gin.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -std=gnu99 -fPIC -MD -MT Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bfp_gin.c.o -MF CMakeFiles/rdkit.dir/bfp_gin.c.o.d -o CMakeFiles/rdkit.dir/bfp_gin.c.o -c /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/bfp_gin.c [ 93%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bitstring.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -std=gnu99 -fPIC -MD -MT Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/bitstring.c.o -MF CMakeFiles/rdkit.dir/bitstring.c.o.d -o CMakeFiles/rdkit.dir/bitstring.c.o -c /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/bitstring.c [ 93%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/rdkit_io.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/rdkit_io.c [ 93%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/rxn_op.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/rxn_op.c [ 93%] Building C object Code/PgSQL/rdkit/CMakeFiles/rdkit.dir/sfp_op.c.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DRDKITVER=\"007700\" -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=\"2026.03.2\" -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/sfp_op.c [ 93%] Linking CXX shared library librdkit.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdkit.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/rdkit.dir/link.d -Wl,-soname,librdkit.so -o librdkit.so CMakeFiles/rdkit.dir/adapter.cpp.o CMakeFiles/rdkit.dir/bfp_op.c.o CMakeFiles/rdkit.dir/cache.c.o CMakeFiles/rdkit.dir/guc.c.o CMakeFiles/rdkit.dir/low_gist.c.o CMakeFiles/rdkit.dir/mol_op.c.o CMakeFiles/rdkit.dir/rdkit_gist.c.o CMakeFiles/rdkit.dir/bfp_gist.c.o CMakeFiles/rdkit.dir/bfp_gin.c.o CMakeFiles/rdkit.dir/bitstring.c.o CMakeFiles/rdkit.dir/rdkit_io.c.o CMakeFiles/rdkit.dir/rxn_op.c.o CMakeFiles/rdkit.dir/sfp_op.c.o -L/build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/lib /usr/lib/x86_64-linux-gnu/libpq.so ../../../lib/libRDKitRDInchiLib.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libinchi.so ../../../lib/libRDKitMolInterchange.so.1.2026.03.2 ../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolDraw2D.so.1.2026.03.2 ../../../lib/libRDKitMolHash.so.1.2026.03.2 ../../../lib/libRDKitFMCS.so.1.2026.03.2 ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcairo.so /usr/lib/x86_64-linux-gnu/libfreetype.so ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cmake -E copy_directory /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/sql /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit/sql cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cmake -E copy_directory /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/data /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit/data cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit && /usr/bin/cmake -E copy_directory /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/expected /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/PgSQL/rdkit/expected make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 93%] Built target rdkit [ 93%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/MultithreadedSmilesMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp [ 93%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/MultithreadedSDMolSupplier.cpp.o -MF CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o.d -o CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp [ 93%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o -MF CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o.d -o CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/ResonanceMolSupplier.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake "--color=" cxsmilesTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 93%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/SmilesParse/cxsmiles_test.cpp [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MolBundle.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MolBundle.cpp.o -MF CMakeFiles/rdchem.dir/MolBundle.cpp.o.d -o CMakeFiles/rdchem.dir/MolBundle.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/MolBundle.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MarvinParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/DependInfo.cmake "--color=" testMrvToMol make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 95%] Building CXX object Code/GraphMol/MarvinParse/CMakeFiles/testMrvToMol.dir/testMrvToMol.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/MarvinParse/testMrvToMol.cpp [ 95%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/StereoGroup.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/StereoGroup.cpp.o -MF CMakeFiles/rdchem.dir/StereoGroup.cpp.o.d -o CMakeFiles/rdchem.dir/StereoGroup.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/StereoGroup.cpp [ 95%] Linking CXX shared module ../../../rdkit/Chem/rdmolfiles.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdmolfiles.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdmolfiles.dir/link.d -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.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 -ldl /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 95%] Built target rdmolfiles 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GenericGroups /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GenericGroups /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.dir/DependInfo.cmake "--color=" testGenericGroups make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.dir/build.make Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 95%] Building CXX object Code/GraphMol/GenericGroups/CMakeFiles/testGenericGroups.dir/generic_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GenericGroups && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/GenericGroups/generic_tests.cpp [ 95%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/SubstanceGroup.cpp.o -MF CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o.d -o CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/SubstanceGroup.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake "--color=" rdChemReactions make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 95%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp [ 95%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Chirality.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/Chirality.cpp.o -MF CMakeFiles/rdchem.dir/Chirality.cpp.o.d -o CMakeFiles/rdchem.dir/Chirality.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/Chirality.cpp [ 95%] Linking CXX executable testMrvToMol cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMrvToMol.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testMrvToMol.dir/link.d CMakeFiles/testMrvToMol.dir/testMrvToMol.cpp.o -o testMrvToMol ../../../lib/libRDKitMarvinParser.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 95%] Built target testMrvToMol [ 96%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/rdChemReactions.cpp.o -MF CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o.d -o CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp [ 96%] Linking CXX executable cxsmilesTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/cxsmilesTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/cxsmilesTest.dir/link.d CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o -o cxsmilesTest ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitMarvinParser.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 96%] Built target cxsmilesTest 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/DependInfo.cmake "--color=" tautomerQueryTestCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 96%] Building CXX object Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o -MF CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o.d -o CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/TautomerQuery/catch_tests.cpp [ 96%] Linking CXX executable testGenericGroups cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GenericGroups && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGenericGroups.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 96%] Built target testGenericGroups 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/TautomerQuery/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/DependInfo.cmake "--color=" rdTautomerQuery make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 96%] Building CXX object Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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 -DrdTautomerQuery_EXPORTS -I/build/reproducible-path/rdkit-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o -MF CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o.d -o CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/TautomerQuery/Wrap/rdTautomerQuery.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/DependInfo.cmake "--color=" SynthonSpaceSearch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 96%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSearch_details.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearch_details.cpp [ 96%] Linking CXX executable tautomerQueryTestCatch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 96%] Built target tautomerQueryTestCatch make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake "--color=" SubstructLibrary make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 96%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SubstructLibrary/SubstructLibrary.cpp [ 96%] Linking CXX shared module ../../../rdkit/Chem/rdchem.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdchem.dir/link.txt --verbose=1 [ 96%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SubstructLibrary/PatternFactory.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdchem.dir/link.d -o ../../../rdkit/Chem/rdchem.so CMakeFiles/rdchem.dir/rdchem.cpp.o 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.1.2026.03.2 ../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 96%] Built target rdchem [ 96%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpace.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -fPIC -MD -MT Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpace.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/SynthonSpace.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpace.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.cpp [ 96%] Linking CXX shared module ../../../../rdkit/Chem/rdTautomerQuery.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdTautomerQuery.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdTautomerQuery.dir/link.d -o ../../../../rdkit/Chem/rdTautomerQuery.so CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o ../../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 96%] Built target rdTautomerQuery [ 96%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSet.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSet.cpp In file included from /usr/include/c++/15/string:56, from /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/Invariant.h:17, from /build/reproducible-path/rdkit-202603.2/Code/Geometry/point.h:22, from /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolPickler.h:14, from /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:34: 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-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:499:54: /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-202603.2/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-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:499:54: note: ‘’ declared here 499 | 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::addReactionToPNGFileHelper(const ChemicalReaction&, boost::python::api::object, bool, bool, bool, bool)’ at /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:512:56: /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-202603.2/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-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:512:56: note: ‘’ declared here 512 | 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 ‘std::string RDKit::pyObjectToString(boost::python::api::object)’ at /build/reproducible-path/rdkit-202603.2/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-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘std::string RDKit::pyObjectToString(boost::python::api::object)’: /build/reproducible-path/rdkit-202603.2/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 = 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-202603.2/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-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘std::string RDKit::pyObjectToString(boost::python::api::object)’: /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:76:56: note: ‘’ declared here 76 | std::wstring ws = python::extract(input); | ^ [ 96%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/Synthon.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SynthonSpaceSearch/Synthon.cpp [ 96%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSearcher.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearcher.cpp 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-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:447:59: /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-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp: In function ‘boost::python::api::object RDKit::PreprocessReaction(ChemicalReaction&, boost::python::dict, std::string)’: /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:447:59: note: ‘’ declared here 447 | std::string k = python::extract(item[0]); | ^ 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-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:405:57: /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-202603.2/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-202603.2/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:405:57: note: ‘’ declared here 405 | std::string k = python::extract(item[0]); | ^ [ 96%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSubstructureSearcher.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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/SynthonSpaceSubstructureSearcher.cpp.o -MF CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSubstructureSearcher.cpp.o.d -o CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceSubstructureSearcher.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSubstructureSearcher.cpp [ 97%] Linking CXX shared library ../../../lib/libRDKitSubstructLibrary.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/SubstructLibrary.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/SubstructLibrary.dir/link.d -Wl,-soname,libRDKitSubstructLibrary.so.1 -o ../../../lib/libRDKitSubstructLibrary.so.1.2026.03.2 CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o ../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 /usr/lib/x86_64-linux-gnu/libz.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructLibrary.so.1.2026.03.2 ../../../lib/libRDKitSubstructLibrary.so.1 ../../../lib/libRDKitSubstructLibrary.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 97%] Built target SubstructLibrary [ 97%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceFingerprintSearcher.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceFingerprintSearcher.cpp [ 97%] Linking CXX shared module ../../../../rdkit/Chem/rdChemReactions.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdChemReactions.dir/link.txt --verbose=1 [ 98%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceRascalSearcher.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceRascalSearcher.cpp /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdChemReactions.dir/link.d -o ../../../../rdkit/Chem/rdChemReactions.so CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o ../../../../lib/libRDKitMarvinParser.so.1.2026.03.2 ../../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 98%] Built target rdChemReactions 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake "--color=" testRGroupDecomp make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 98%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp [ 98%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SynthonSpaceHitSet.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceHitSet.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/DependInfo.cmake "--color=" testRGroupDecompInternals make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 98%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecompInternals.dir/testRGroupInternals.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/RGroupDecomposition/testRGroupInternals.cpp [ 98%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/SearchResults.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SynthonSpaceSearch/SearchResults.cpp 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/DependInfo.cmake "--color=" rgroupCatchTests make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 98%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/rgroupCatchTests.dir/catch_rgd.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/RGroupDecomposition/catch_rgd.cpp [ 98%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/SynthonSpaceSearch.dir/MemoryMappedFileReader.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SynthonSpaceSearch/MemoryMappedFileReader.cpp [ 98%] Linking CXX executable testRGroupDecompInternals cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitRGroupDecomposition.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitFMCS.so.1.2026.03.2 ../../../lib/libRDKitga.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 98%] Built target testRGroupDecompInternals make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/DependInfo.cmake "--color=" gaExample make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 98%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/GaExample.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/RGroupDecomposition/CMakeFiles/gaExample.dir/GaExample.cpp.o -MF CMakeFiles/gaExample.dir/GaExample.cpp.o.d -o CMakeFiles/gaExample.dir/GaExample.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/GaExample.cpp make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake "--color=" rdRGroupDecomposition make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 98%] Building CXX object Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/DependInfo.cmake "--color=" substructLibraryTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 98%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/SubstructLibrary/substructLibraryTest.cpp [ 98%] Linking CXX shared library ../../../lib/libRDKitSynthonSpaceSearch.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/cmake -E cmake_link_script CMakeFiles/SynthonSpaceSearch.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/SynthonSpaceSearch.dir/link.d -Wl,-soname,libRDKitSynthonSpaceSearch.so.1 -o ../../../lib/libRDKitSynthonSpaceSearch.so.1.2026.03.2 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.1.2026.03.2 ../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSynthonSpaceSearch.so.1.2026.03.2 ../../../lib/libRDKitSynthonSpaceSearch.so.1 ../../../lib/libRDKitSynthonSpaceSearch.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 98%] Built target SynthonSpaceSearch 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/DependInfo.cmake "--color=" substructLibraryCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 98%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryCatchTest.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/SubstructLibrary/catch_tests.cpp [ 99%] Linking CXX executable gaExample cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/gaExample.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/gaExample.dir/link.d CMakeFiles/gaExample.dir/GaExample.cpp.o -o gaExample ../../../lib/libRDKitRGroupDecomposition.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.90.0 ../../../lib/libRDKitFMCS.so.1.2026.03.2 ../../../lib/libRDKitga.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 99%] Built target gaExample 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstructLibrary/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake "--color=" rdSubstructLibrary make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu' [ 99%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp [ 99%] Linking CXX executable rgroupCatchTests cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/rgroupCatchTests.dir/link.d CMakeFiles/rgroupCatchTests.dir/catch_rgd.cpp.o -o rgroupCatchTests ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitRGroupDecomposition.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitFMCS.so.1.2026.03.2 ../../../lib/libRDKitga.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 99%] Built target rgroupCatchTests [ 99%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/DependInfo.cmake "--color=" testSynthonSpaceSubstructureSearch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 99%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceSubstructureSearch.dir/substructure_search_catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/SynthonSpaceSearch/substructure_search_catch_tests.cpp [ 99%] Linking CXX executable substructLibraryTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructLibraryTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitSubstructLibrary.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 99%] Built target substructLibraryTest make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/DependInfo.cmake "--color=" testSynthonSpaceFingerprintSearch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 99%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/fingerprint_search_catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++20 -MD -MT Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceFingerprintSearch.dir/fingerprint_search_catch_tests.cpp.o -MF CMakeFiles/testSynthonSpaceFingerprintSearch.dir/fingerprint_search_catch_tests.cpp.o.d -o CMakeFiles/testSynthonSpaceFingerprintSearch.dir/fingerprint_search_catch_tests.cpp.o -c /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/fingerprint_search_catch_tests.cpp [ 99%] Linking CXX shared module ../../../../rdkit/Chem/rdRGroupDecomposition.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdRGroupDecomposition.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdRGroupDecomposition.dir/link.d -o ../../../../rdkit/Chem/rdRGroupDecomposition.so CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o ../../../../lib/libRDKitRGroupDecomposition.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitFMCS.so.1.2026.03.2 ../../../../lib/libRDKitga.so.1.2026.03.2 ../../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 99%] Built target rdRGroupDecomposition make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/DependInfo.cmake "--color=" testSynthonSpaceRascalSearch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 99%] Building CXX object Code/GraphMol/SynthonSpaceSearch/CMakeFiles/testSynthonSpaceRascalSearch.dir/rascal_search_catch_tests.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -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-202603.2/Code/GraphMol/SynthonSpaceSearch/rascal_search_catch_tests.cpp [ 99%] Linking CXX executable substructLibraryCatchTest cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 99%] Built target substructLibraryCatchTest 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-202603.2/obj-x86_64-linux-gnu' cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2 /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/Wrap /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/Wrap/CMakeFiles/rdSynthonSpaceSearch.dir/DependInfo.cmake "--color=" rdSynthonSpaceSearch make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' make -f Code/GraphMol/SynthonSpaceSearch/Wrap/CMakeFiles/rdSynthonSpaceSearch.dir/build.make Code/GraphMol/SynthonSpaceSearch/Wrap/CMakeFiles/rdSynthonSpaceSearch.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 99%] Building CXX object Code/GraphMol/SynthonSpaceSearch/Wrap/CMakeFiles/rdSynthonSpaceSearch.dir/rdSynthonSpaceSearch.cpp.o cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/Wrap && /usr/bin/c++ -DBOOST_CONTAINER_DYN_LINK -DBOOST_CONTAINER_NO_LIB -DBOOST_GRAPH_DYN_LINK -DBOOST_GRAPH_NO_LIB -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_RANDOM_DYN_LINK -DBOOST_RANDOM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_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-202603.2/External -I/build/reproducible-path/rdkit-202603.2/Code -I/build/reproducible-path/rdkit-202603.2/External/boost-numeric-bindings -I/usr/lib/x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-202603.2/Code/GraphMol/SynthonSpaceSearch/Wrap/rdSynthonSpaceSearch.cpp [ 99%] Linking CXX executable testRGroupDecomp cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testRGroupDecomp.dir/link.d CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -o testRGroupDecomp ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitRGroupDecomposition.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitFMCS.so.1.2026.03.2 ../../../lib/libRDKitga.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [ 99%] Built target testRGroupDecomp [100%] Linking CXX executable testSynthonSpaceRascalSearch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSynthonSpaceRascalSearch.dir/link.txt --verbose=1 [100%] Linking CXX executable testSynthonSpaceFingerprintSearch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSynthonSpaceFingerprintSearch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitSynthonSpaceSearch.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitRascalMCES.so.1.2026.03.2 ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [100%] Built target testSynthonSpaceRascalSearch /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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/testSynthonSpaceFingerprintSearch.dir/link.d CMakeFiles/testSynthonSpaceFingerprintSearch.dir/fingerprint_search_catch_tests.cpp.o -o testSynthonSpaceFingerprintSearch ../../RDGeneral/librdkitCatch.a ../../../lib/libRDKitSubstructLibrary.so.1.2026.03.2 ../../../lib/libRDKitSynthonSpaceSearch.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitRascalMCES.so.1.2026.03.2 ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [100%] Built target testSynthonSpaceFingerprintSearch [100%] Linking CXX executable testSynthonSpaceSubstructureSearch cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSynthonSpaceSubstructureSearch.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ld.bfd: CMakeFiles/testSynthonSpaceSubstructureSearch.dir/substructure_search_catch_tests.cpp.o: in function `CATCH2_INTERNAL_TEST_22()': ./obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/./Code/GraphMol/SynthonSpaceSearch/substructure_search_catch_tests.cpp:382:(.text+0x14b3): warning: the use of `tmpnam' is dangerous, better use `mkstemp' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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.1.2026.03.2 ../../../lib/libRDKitSynthonSpaceSearch.so.1.2026.03.2 /usr/lib/libCatch2.a ../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 ../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../lib/libRDKitRascalMCES.so.1.2026.03.2 ../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [100%] Built target testSynthonSpaceSubstructureSearch [100%] Linking CXX shared module ../../../../rdkit/Chem/rdSynthonSpaceSearch.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSynthonSpaceSearch.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdSynthonSpaceSearch.dir/link.d -o ../../../../rdkit/Chem/rdSynthonSpaceSearch.so CMakeFiles/rdSynthonSpaceSearch.dir/rdSynthonSpaceSearch.cpp.o ../../../../lib/libRDKitSynthonSpaceSearch.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitRascalMCES.so.1.2026.03.2 ../../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 ../../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../../lib/libRDKitDescriptors.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitPartialCharges.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [100%] Built target rdSynthonSpaceSearch [100%] Linking CXX shared module ../../../../rdkit/Chem/rdSubstructLibrary.so cd /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSubstructLibrary.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -shared -Wl,-z,relro -Wl,-z,now -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,--dependency-file=CMakeFiles/rdSubstructLibrary.dir/link.d -o ../../../../rdkit/Chem/rdSubstructLibrary.so CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o ../../../../lib/libRDKitSubstructLibrary.so.1.2026.03.2 ../../../../lib/libRDKitRDBoost.so.1.2026.03.2 ../../../../lib/libRDKitGeneralizedSubstruct.so.1.2026.03.2 ../../../../lib/libRDKitMolEnumerator.so.1.2026.03.2 ../../../../lib/libRDKitTautomerQuery.so.1.2026.03.2 ../../../../lib/libRDKitMolStandardize.so.1.2026.03.2 ../../../../lib/libRDKitChemReactions.so.1.2026.03.2 ../../../../lib/libRDKitFileParsers.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libmaeparser.so.1.3.3 /usr/lib/x86_64-linux-gnu/libz.so ../../../../lib/libRDKitFilterCatalog.so.1.2026.03.2 ../../../../lib/libRDKitChemTransforms.so.1.2026.03.2 ../../../../lib/libRDKitDepictor.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libcoordgen.so.3.0.2 ../../../../lib/libRDKitMolAlign.so.1.2026.03.2 ../../../../lib/libRDKitMolTransforms.so.1.2026.03.2 ../../../../lib/libRDKitEigenSolvers.so.1.2026.03.2 ../../../../lib/libRDKitAlignment.so.1.2026.03.2 ../../../../lib/libRDKitFingerprints.so.1.2026.03.2 ../../../../lib/libRDKitCIPLabeler.so.1.2026.03.2 ../../../../lib/libRDKitSubgraphs.so.1.2026.03.2 ../../../../lib/libRDKitSubstructMatch.so.1.2026.03.2 ../../../../lib/libRDKitGenericGroups.so.1.2026.03.2 ../../../../lib/libRDKitSmilesParse.so.1.2026.03.2 ../../../../lib/libRDKitGraphMol.so.1.2026.03.2 ../../../../lib/libRDKitRDGeometryLib.so.1.2026.03.2 ../../../../lib/libRDKitCatalogs.so.1.2026.03.2 ../../../../lib/libRDKitDataStructs.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_numpy313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_container.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_graph.so.1.90.0 ../../../../lib/libRDKitRDGeneral.so.1.2026.03.2 /usr/lib/x86_64-linux-gnu/libboost_serialization.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.90.0 /usr/lib/x86_64-linux-gnu/libboost_regex.so.1.90.0 -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' [100%] Built target rdSubstructLibrary make[3]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/Code/PgSQL/rdkit/build-18' /usr/bin/cmake -S/build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit -B/build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18 --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18/CMakeFiles /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18' make -f CMakeFiles/rdkit.dir/build.make CMakeFiles/rdkit.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18' cd /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18 /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18 /build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18/CMakeFiles/rdkit.dir/DependInfo.cmake "--color=" rdkit make[4]: Leaving directory '/build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18' make -f CMakeFiles/rdkit.dir/build.make CMakeFiles/rdkit.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18' [ 7%] Building CXX object CMakeFiles/rdkit.dir/adapter.cpp.o /usr/bin/c++ -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/../../../Code -I/usr/include/postgresql -I/usr/include/postgresql/18/server -g -O2 -ffile-prefix-map=/build/reproducible-path/rdkit-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/adapter.cpp [ 14%] Building C object CMakeFiles/rdkit.dir/bfp_op.c.o /usr/bin/cc -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/bfp_op.c [ 21%] Building C object CMakeFiles/rdkit.dir/cache.c.o /usr/bin/cc -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/cache.c [ 28%] Building C object CMakeFiles/rdkit.dir/guc.c.o /usr/bin/cc -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/guc.c [ 35%] Building C object CMakeFiles/rdkit.dir/low_gist.c.o /usr/bin/cc -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/low_gist.c [ 42%] Building C object CMakeFiles/rdkit.dir/mol_op.c.o /usr/bin/cc -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/mol_op.c [ 50%] Building C object CMakeFiles/rdkit.dir/rdkit_gist.c.o /usr/bin/cc -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/rdkit_gist.c [ 57%] Building C object CMakeFiles/rdkit.dir/bfp_gist.c.o /usr/bin/cc -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/bfp_gist.c [ 64%] Building C object CMakeFiles/rdkit.dir/bfp_gin.c.o /usr/bin/cc -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/bfp_gin.c [ 71%] Building C object CMakeFiles/rdkit.dir/bitstring.c.o /usr/bin/cc -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/bitstring.c [ 78%] Building C object CMakeFiles/rdkit.dir/rdkit_io.c.o /usr/bin/cc -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/rdkit_io.c [ 85%] Building C object CMakeFiles/rdkit.dir/rxn_op.c.o /usr/bin/cc -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/Code/PgSQL/rdkit/rxn_op.c [ 92%] Building C object CMakeFiles/rdkit.dir/sfp_op.c.o /usr/bin/cc -DRDKITVER=\"007700\" -DRDK_TOOLKIT_VERSION=\"\" -Drdkit_EXPORTS -I/build/reproducible-path/rdkit-202603.2/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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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-202603.2/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/x86_64-linux-gnu-ld.bfd: cannot find -lGeneralizedSubstruct: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lMolEnumerator: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lTautomerQuery: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lMolDraw2D: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lMolTransforms: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lMolHash: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lFMCS: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lChemReactions: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lChemTransforms: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lFileParsers: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lSmilesParse: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lFingerprints: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lSubgraphs: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lDescriptors: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lPartialCharges: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lSubstructMatch: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lGraphMol: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lEigenSolvers: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lDataStructs: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lDepictor: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lRDGeometryLib: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: cannot find -lRDGeneral: No such file or directory /usr/bin/x86_64-linux-gnu-ld.bfd: 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-202603.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/rdkit.dir/link.d -Wl,-soname,librdkit.so -o librdkit.so CMakeFiles/rdkit.dir/adapter.cpp.o CMakeFiles/rdkit.dir/bfp_op.c.o CMakeFiles/rdkit.dir/cache.c.o CMakeFiles/rdkit.dir/guc.c.o CMakeFiles/rdkit.dir/low_gist.c.o CMakeFiles/rdkit.dir/mol_op.c.o CMakeFiles/rdkit.dir/rdkit_gist.c.o CMakeFiles/rdkit.dir/bfp_gist.c.o CMakeFiles/rdkit.dir/bfp_gin.c.o CMakeFiles/rdkit.dir/bitstring.c.o CMakeFiles/rdkit.dir/rdkit_io.c.o CMakeFiles/rdkit.dir/rxn_op.c.o CMakeFiles/rdkit.dir/sfp_op.c.o /usr/lib/x86_64-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-202603.2/Code/PgSQL/rdkit/build-18' make[3]: *** [CMakeFiles/Makefile2:90: CMakeFiles/rdkit.dir/all] Error 2 make[3]: Leaving directory '/build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18' make[2]: *** [Makefile:139: all] Error 2 make[2]: Leaving directory '/build/reproducible-path/rdkit-202603.2/Code/PgSQL/rdkit/build-18' (cd /build/reproducible-path/rdkit-202603.2/Code; doxygen doxygen/doxygen.config) warning: Tag 'TCL_SUBST' at line 213 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'SYMBOL_CACHE_SIZE' at line 337 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'SHOW_DIRECTORIES' at line 557 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'COLS_IN_ALPHA_INDEX' at line 869 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'HTML_TIMESTAMP' at line 965 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'HTML_ALIGN_MEMBERS' at line 971 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'USE_INLINE_TREES' at line 1162 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'FORMULA_TRANSPARENT' at line 1189 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'LATEX_SOURCE_CODE' at line 1327 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'XML_SCHEMA' at line 1425 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'XML_DTD' at line 1431 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'PERL_PATH' at line 1596 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'CLASS_DIAGRAMS' at line 1608 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'MSCGEN_PATH' at line 1617 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_FONTNAME' at line 1647 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_FONTSIZE' at line 1652 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_TRANSPARENT' at line 1792 of file 'doxygen/doxygen.config' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: argument 'a4wide' for option PAPER_TYPE is not a valid enum value Using the default: a4! warning: doxygen no longer ships with the FreeSans font. You may want to clear or change DOT_FONTNAME. Otherwise you run the risk that the wrong font is being used for dot generated graphs. Doxygen version used: 1.15.0 Searching for include files... Searching for example files... Searching for images... Searching for dot files... Searching for msc files... Searching for dia files... Searching for plantuml files... Searching for files to exclude Searching INPUT for files to process... Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/configs Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInterchange Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/tutorial Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GenericGroups Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ReducedGraphs Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Trajectory Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/PartialCharges Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/EnumerateStereoisomers Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstructLibrary Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MarvinParse Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/data Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MMPA Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/libs Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subgraphs Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Abbreviations Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/Test Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Substruct Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolProcessing Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DetermineBonds Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolTransforms Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolCatalog Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Qt Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Qt/Demo Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Fonts Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInteractionFields Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ScaffoldNetwork Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GeneralizedSubstruct Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/data Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ShapeHelpers Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/TautomerQuery Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/CrystalFF Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/UFF Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Deprotect Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/FragmentCatalog Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TransformCatalog Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/AcidBaseCatalog Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TautomerCatalog Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolHash Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/Catalogs Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/DataStructs Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/Query Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/ML Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/ML/Data Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/ML/InfoTheory Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/ML/Cluster Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/ML/Cluster/Murtagh Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/DataManip Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/DataManip/MetricMatrixCalc Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/RDGeneral Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/hash Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/hash/detail Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/RDBoost Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/DistGeom Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/ForceField Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/Numerics Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/Numerics/EigenSolvers Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/Numerics/Optimizer Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/Numerics/Alignment Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/Geometry Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/Features Searching for files in directory /build/reproducible-path/rdkit-202603.2/Code/ChemicalFeatures Reading and parsing tag files Parsing files Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Abbreviations/Abbreviations.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Abbreviations/Abbreviations.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Atom.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Atom.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/atomic_data.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/atomic_data.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/AtomIterators.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/AtomIterators.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Atropisomers.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Atropisomers.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Bond.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Bond.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/BondIterators.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/BondIterators.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Canon.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Canon.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/CartesianProduct.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/CartesianProduct.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/Enumerate.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/Enumerate.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/EnumerateBase.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/EnumerateBase.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/EnumerateTypes.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/EnumerateTypes.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/EnumerationStrategyBase.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePa/build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionParser.h:173: warning: unbalanced grouping commands irs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/RandomSample.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/RandomSample.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/RandomSampleAllBBs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Enumerate/RandomSampleAllBBs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/PreprocessRxn.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/PreprocessRxn.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Reaction.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Reaction.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionFingerprints.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionFingerprints.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionParser.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionParser.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionPickler.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionPickler.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionRunner.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionRunner.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/ReactionUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/SanitizeRxn.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/SanitizeRxn.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms/ChemTransforms.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms/ChemTransforms.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms/MolFragmenter.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms/MolFragmenter.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms/MolFragmenterJSONParser.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemTransforms/MolFragmenterJSONParser.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Chirality.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Chirality.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/CIPLabeler.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/CIPLabeler.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/CIPMol.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/CIPMol.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/configs/AtropisomerBond.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/configs/AtropisomerBond.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/configs/Configuration.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/configs/Configuration.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/configs/Sp2Bond.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/configs/Sp2Bond.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/configs/Tetrahedral.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/configs/Tetrahedral.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Descriptor.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Descriptor.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Digraph.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Digraph.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Edge.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Edge.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Mancude.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Mancude.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Node.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Node.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Priority.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Priority.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Pairlist.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Pairlist.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule1a.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule1a.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule1b.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule1b.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule2.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule2.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule3.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule3.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule4a.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule4a.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule4b.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule4b.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule4c.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule4c.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule5.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule5.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule5New.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule5New.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule6.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rule6.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rules.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/Rules.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/SequenceRule.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/rules/SequenceRule.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Sort.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Sort.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/TooManyNodesException.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/TooManyNodesException.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Conformer.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Conformer.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/DepictUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/DepictUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/EmbeddedFrag.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/EmbeddedFrag.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/RDDepictor.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/RDDepictor.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/Templates.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/Templates.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/TemplateSmarts.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/TemplateSmarts.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Deprotect/Deprotect.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Deprotect/Deprotect.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/AtomFeat.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/AtomFeat.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/AUTOCORR2D.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/AUTOCORR2D.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/AUTOCORR3D.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/AUTOCORR3D.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/BCUT.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/BCUT.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/ConnectivityDescriptors.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/ConnectivityDescriptors.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/CoulombMat.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/CoulombMat.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Crippen.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Crippen.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Data3Ddescriptors.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Data3Ddescriptors.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/DCLV.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/DCLV.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/DCLV_dots.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/DCLV_dots.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/EEM.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/EEM.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/GETAWAY.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/GETAWAY.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Lipinski.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Lipinski.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MolData3Ddescriptors.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MolData3Ddescriptors.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MolDescriptors.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MolDescriptors.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MolDescriptors3D.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MolDescriptors3D.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MolSurf.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MolSurf.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MORSE.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MORSE.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MQN.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/MQN.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/OxidationNumbers.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/OxidationNumbers.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/PBF.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/PBF.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/PMI.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/PMI.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Property.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Property.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/RDF.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/RDF.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/RegisterDescriptor.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/RegisterDescriptor.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/USRDescriptor.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/USRDescriptor.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/WHIM.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/WHIM.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/details.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/details.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DetermineBonds/DetermineBonds.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DetermineBonds/DetermineBonds.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers/Embedder.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers/Embedder.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/EnumerateStereoisomers/EnumerateStereoisomers.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/EnumerateStereoisomers/EnumerateStereoisomers.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/EnumerateStereoisomers/Flippers.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/EnumerateStereoisomers/Flippers.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/CDXMLParser.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/CDXMLParser.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/FileParsers.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/FileParsers.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/FileParserUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/FileParserUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/FileWriters.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/FileWriters.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/GeneralFileReader.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/GeneralFileReader.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MaestroProperties.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MaestroProperties.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolFileStereochem.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolFileStereochem.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolSGroupParsing.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolSGroupParsing.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolSGroupWriting.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolSGroupWriting.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolSupplier.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolSupplier.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolSupplier.v1API.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolSupplier.v1API.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolWriters.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolWriters.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MultithreadedMolSupplier.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MultithreadedMolSupplier.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/PNGParser.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/PNGParser.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/ProximityBonds.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/ProximityBonds.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/SequenceParsers.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/SequenceParsers.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/SequenceWriters.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/SequenceWriters.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FilterCatalog.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FilterCatalog.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FilterCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FilterCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FilterMatcherBase.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FilterMatcherBase.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FilterMatchers.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FilterMatchers.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/Filters.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/Filters.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/AtomPairGenerator.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/AtomPairGenerator.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/AtomPairs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/AtomPairs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/FingerprintGenerator.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/FingerprintGenerator.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/Fingerprints.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/Fingerprints.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/FingerprintUtil.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/FingerprintUtil.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MACCS.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MACCS.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MHFP.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MHFP.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MorganFingerprints.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MorganFingerprints.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MorganGenerator.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MorganGenerator.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/RDKitFPGenerator.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/RDKitFPGenerator.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/Composition2N.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/Composition2N.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/DebugTrace.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/DebugTrace.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/DuplicatedSeedCache.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/DuplicatedSeedCache.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/FMCS.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/FMCS.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/Graph.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/Graph.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/MatchTable.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/MatchTable.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/MaximumCommonSubgraph.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/MaximumCommonSubgraph.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/Seed.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/Seed.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/SeedSet.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/SeedSet.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/SubstructMatchCustom.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/SubstructMatchCustom.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/SubstructureCache.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/SubstructureCache.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/Target.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/Target.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/TargetMatch.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/TargetMatch.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleContribs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleContribs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/FFConvenience.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/FFConvenience.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF/MMFF.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/MMFF/MMFF.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/UFF/Builder.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/UFF/Builder.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/UFF/UFF.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/UFF/UFF.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/FragCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/FragCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/FragCatalogUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/FragCatalogUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/FragCatGenerator.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/FragCatGenerator.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/FragCatParams.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/FragCatParams.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/FragFPGenerator.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/FragFPGenerator.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/GaussianShape.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/GaussianShape.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/ShapeInput.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/ShapeInput.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/ShapeOverlayOptions.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/ShapeOverlayOptions.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/SingleConformerAlignment.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/SingleConformerAlignment.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GeneralizedSubstruct/XQMol.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GeneralizedSubstruct/XQMol.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GenericGroups/GenericGroups.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GenericGroups/GenericGroups.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GraphMol.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GraphMol.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MarvinParse/MarvinDefs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MarvinParse/MarvinDefs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MarvinParse/MarvinParser.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MarvinParse/MarvinParser.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MMPA/MMPA.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MMPA/MMPA.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign/AlignMolecules.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign/AlignMolecules.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign/O3AAlignMolecules.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign/O3AAlignMolecules.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolBundle.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolBundle.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolCatalog/MolCatalog.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolCatalog/MolCatalog.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolCatalog/MolCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolCatalog/MolCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolCatalog/MolCatalogParams.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolCatalog/MolCatalogParams.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/FeatureParser.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/FeatureParser.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/AtomSymbol.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code//build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2D.h:233: warning: unbalanced grouping commands GraphMol/MolDraw2D/AtomSymbol.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawAnnotation.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawAnnotation.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawMol.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawMol.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawMolMCH.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawMolMCH.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawMolMCHCircleAndLine.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawMolMCHLasso.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawShape.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawShape.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawText.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawText.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextCairo.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextCairo.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextFT.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextFT.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextFTCairo.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextFTCairo.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextFTJS.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextFTJS.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextFTSVG.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextFTSVG.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextJS.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextJS.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextNotFT.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextNotFT.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextSVG.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/DrawTextSVG.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Fonts/roboto_regular.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Fonts/roboto_regular.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Fonts/telex_regular.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Fonts/telex_regular.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2D.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2D.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DCairo.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DCairo.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DDetails.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DDetails.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DHelpers.h... /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolOps.h:514: warning: unbalanced grouping commands /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolOps.h:805: warning: unbalanced grouping commands Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DJS.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DJS.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DSVG.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DSVG.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2DUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2Dwx.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/MolDraw2Dwx.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Qt/DrawTextFTQt.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Qt/DrawTextFTQt.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Qt/DrawTextQt.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Qt/DrawTextQt.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Qt/MolDraw2DQt.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Qt/MolDraw2DQt.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/StringRect.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/StringRect.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/LinkNode.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/LinkNode.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolHash/mf.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolHash/mf.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolHash/MolHash.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolHash/MolHash.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolHash/nmmolhash.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolHash/nmmolhash.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInteractionFields/MIFDescriptors.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInteractionFields/MIFDescriptors.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInterchange/details.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInterchange/details.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInterchange/MolInterchange.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInterchange/MolInterchange.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolOps.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolOps.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolPickler.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolPickler.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolProcessing/MolProcessing.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolProcessing/MolProcessing.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Charge.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Charge.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Fragment.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Fragment.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Metal.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Metal.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/MolStandardize.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/MolStandardize.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Normalize.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Normalize.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Pipeline.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Pipeline.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Tautomer.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Tautomer.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Validate.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Validate.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolTransforms/MolTransforms.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolTransforms/MolTransforms.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MonomerInfo.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MonomerInfo.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/new_canon.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/new_canon.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/PartialCharges/GasteigerCharges.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/PartialCharges/GasteigerCharges.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/PartialCharges/GasteigerParams.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/PartialCharges/GasteigerParams.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/PeriodicTable.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/PeriodicTable.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/QueryAtom.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/QueryAtom.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/QueryBond.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/QueryBond.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/QueryOps.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/QueryOps.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/PartitionSet.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/PartitionSet.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/RascalClusterOptions.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/RascalClusterOptions.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/RascalDetails.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/RascalDetails.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/RascalMCES.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/RascalMCES.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/RascalOptions.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/RascalOptions.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/RascalResult.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/RascalResult.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RDKitBase.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RDKitBase.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RDKitQueries.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RDKitQueries.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ReducedGraphs/ReducedGraphs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ReducedGraphs/ReducedGraphs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Resonance.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Resonance.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupCore.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupCore.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupData.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupData.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupDecomp.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupDecomp.h... Preprocessing /build//build/reproducible-path/rdkit-202603.2/Code/GraphMol/ROMol.h:502: warning: unbalanced grouping commands reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupDecompData.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupDecompData.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupDecompJSONParsers.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupDecompJSONParsers.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupDecompParams.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupDecompParams.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupFingerprintScore.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupFingerprintScore.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupGa.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupGa.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupMatch.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupMatch.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupScore.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupScore.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/RGroupUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RingInfo.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RingInfo.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Rings.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Rings.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ROMol.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ROMol.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RWMol.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RWMol.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SanitException.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SanitException.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ScaffoldNetwork/detail.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ScaffoldNetwork/detail.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ScaffoldNetwork/ScaffoldNetwork.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ScaffoldNetwork/ScaffoldNetwork.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ShapeHelpers/ShapeEncoder.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ShapeHelpers/ShapeEncoder.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ShapeHelpers/ShapeUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ShapeHelpers/ShapeUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse/SLNAttribs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse/SLNAttribs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse/SLNParse.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse/SLNParse.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse/SLNParseOps.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse/SLNParseOps.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/CanonicalizeStereoGroups.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/CanonicalizeStereoGroups.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/SmartsWrite.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/SmartsWrite.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/SmilesJSONParsers.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/SmilesJSONParsers.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/SmilesParse.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/SmilesParse.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/SmilesParseOps.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/SmilesParseOps.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/SmilesWrite.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/SmilesWrite.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StereoGroup.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StereoGroup.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/Pattern.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/Pattern.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/ReCharge.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/ReCharge.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/Stereo.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/Stereo.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/StripSmallFragments.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/StripSmallFragments.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/StructChecker.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/StructChecker.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/StructCheckerOptions.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/StructCheckerOptions.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/Tautomer.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/Tautomer.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/Utilites.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/StructChecker/Utilites.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subgraphs/Subgraphs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subgraphs/Subgraphs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subgraphs/SubgraphUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subgraphs/SubgraphUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subset.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Subset.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstanceGroup.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstanceGroup.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Substruct/SubstructMatch.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Substruct/SubstructMatch.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Substruct/SubstructUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Substruct/SubstructUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstructLibrary/PatternFactory.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstructLibrary/PatternFactory.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstructLibrary/SubstructLibrary.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstructLibrary/SubstructLibrary.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstructLibrary/SubstructLibrarySerialization.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/MemoryMappedFileReader.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/MemoryMappedFileReader.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SearchResults.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SearchResults.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/Synthon.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/Synthon.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSet.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSet.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceFingerprintSearcher.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceFingerprintSearcher.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceHitSet.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceHitSet.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceRascalSearcher.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceRascalSearcher.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearch_details.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearch_details.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearcher.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSearcher.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSubstructureSearcher.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpaceSubstructureSearcher.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/TautomerQuery/TautomerQuery.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/TautomerQuery/TautomerQuery.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Trajectory/Snapshot.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Trajectory/Snapshot.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Trajectory/Trajectory.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Trajectory/Trajectory.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Catalogs/Catalog.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Catalogs/Catalog.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Catalogs/CatalogEntry.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Catalogs/CatalogEntry.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Catalogs/CatalogParams.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Catalogs/CatalogParams.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/base64.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/base64.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/BitOps.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/BitOps.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/BitVect.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/BitVect.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/BitVects.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/BitVects.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/BitVectUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/BitVectUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/DatastructsException.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/DatastructsException.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/DatastructsStreamOps.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/DatastructsStreamOps.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/DiscreteDistMat.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/DiscreteDistMat.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/DiscreteValueVect.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/DiscreteValueVect.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/ExplicitBitVect.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/ExplicitBitVect.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/FPBReader.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/FPBReader.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/MultiFPBReader.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/MultiFPBReader.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/RealValueVect.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/RealValueVect.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/SparseBitVect.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/SparseBitVect.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataStructs/SparseIntVect.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataStructs/SparseIntVect.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/AndQuery.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/AndQuery.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/EqualityQuery.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/EqualityQuery.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/GreaterEqualQuery.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/GreaterEqualQuery.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/GreaterQuery.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/GreaterQuery.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/LessEqualQuery.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/LessEqualQuery.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/LessQuery.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/LessQuery.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/NullQueryAlgebra.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/NullQueryAlgebra.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/OrQuery.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/OrQuery.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/Query.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/Query.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/QueryObjects.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/QueryObjects.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/RangeQuery.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/RangeQuery.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/SetQuery.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/SetQuery.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Query/XOrQuery.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Query/XOrQuery.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ML/InfoTheory/CorrMatGenerator.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ML/InfoTheory/CorrMatGenerator.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ML/InfoTheory/InfoBitRanker.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ML/InfoTheory/InfoBitRanker.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ML/InfoTheory/InfoGainFuncs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ML/InfoTheory/InfoGainFuncs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataManip/MetricMatrixCalc/MetricFuncs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataManip/MetricMatrixCalc/MetricFuncs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DataManip/MetricMatrixCalc/MetricMatrixCalc.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DataManip/MetricMatrixCalc/MetricMatrixCalc.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/DistPicker.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/DistPicker.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/HierarchicalClusterPicker.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/HierarchicalClusterPicker.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/LeaderPicker.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/LeaderPicker.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/MaxMinPicker.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/MaxMinPicker.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/BadFileException.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/BadFileException.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/BetterEnums.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/BetterEnums.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/BoostEndInclude.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/BoostEndInclude.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/BoostStartInclude.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/BoostStartInclude.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/ConcurrentQueue.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/ConcurrentQueue.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/ControlCHandler.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/ControlCHandler.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/Dict.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/Dict.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/enum.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/enum.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/Exceptions.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/Exceptions.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/export.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/export.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/FileParseException.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/FileParseException.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/hanoiSort.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/hanoiSort.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/Invariant.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/Invariant.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/JSONHelpers.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/JSONHelpers.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/LocaleSwitcher.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/LocaleSwitcher.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/Ranking.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/Ranking.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDAny.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDAny.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDConfig.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDConfig.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDExportMacros.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDExportMacros.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDLog.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDLog.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDProps.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDProps.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDThreads.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDThreads.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDValue-doublemagic.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDValue-doublemagic.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDValue-taggedunion.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDValue-taggedunion.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDValue.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/RDValue.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/StreamOps.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/StreamOps.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/types.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/types.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/utils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/utils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/versions.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDGeneral/versions.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDBoost/boost_numpy.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDBoost/boost_numpy.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDBoost/import_array.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDBoost/import_array.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDBoost/pyint_api.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDBoost/pyint_api.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDBoost/PySequenceHolder.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDBoost/PySequenceHolder.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDBoost/python.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDBoost/python.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/RDBoost/python_streambuf.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/RDBoost/python_streambuf.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DistGeom/BoundsMatrix.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DistGeom/BoundsMatrix.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DistGeom/ChiralSet.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DistGeom/ChiralSet.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DistGeom/ChiralViolationContribs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DistGeom/ChiralViolationContribs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DistGeom/DistGeomUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DistGeom/DistGeomUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DistGeom/DistViolationContribs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DistGeom/DistViolationContribs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DistGeom/FourthDimContribs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DistGeom/FourthDimContribs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/DistGeom/TriangleSmooth.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/DistGeom/TriangleSmooth.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/AngleConstraint.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/AngleConstraint.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/AngleConstraints.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/AngleConstraints.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/Contrib.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/Contrib.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/DistanceConstraint.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/DistanceConstraint.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/DistanceConstraints.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/DistanceConstraints.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/FiniteDifference.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/FiniteDifference.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/ForceField.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/ForceField.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/AngleBend.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/AngleBend.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/AngleConstraint.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/AngleConstraint.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/BondStretch.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/BondStretch.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/Contribs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/Contribs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/DistanceConstraint.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/DistanceConstraint.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/Nonbonded.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/Nonbonded.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/OopBend.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/OopBend.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/Params.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/Params.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/PositionConstraint.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/PositionConstraint.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/StretchBend.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/StretchBend.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/TorsionAngle.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/TorsionAngle.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/TorsionConstraint.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/TorsionConstraint.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/PositionConstraint.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/PositionConstraint.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/TorsionConstraint.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/TorsionConstraint.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/AngleBend.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/AngleBend.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/AngleConstraint.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/AngleConstraint.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/BondStretch.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/BondStretch.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Contribs.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Contribs.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/DistanceConstraint.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/DistanceConstraint.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Inversion.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Inversion.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Inversions.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Inversions.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Nonbonded.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Nonbonded.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Params.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Params.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/PositionConstraint.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/PositionConstraint.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/TorsionAngle.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/TorsionAngle.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/TorsionConstraint.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/TorsionConstraint.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Utils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ForceField/UFF/Utils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Numerics/Alignment/AlignPoints.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Numerics/Alignment/AlignPoints.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Numerics/Conrec.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Numerics/Conrec.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Numerics/EigenSolvers/PowerEigenSolver.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Numerics/EigenSolvers/PowerEigenSolver.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Numerics/Matrix.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Numerics/Matrix.h... Preprocessing /build/reproducible-path//build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/DCLV.h:67: warning: documented symbol 'uses default vdw RDKit::Descriptors::DoubleCubicLatticeVolume::radii' was not declared or defined. /build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h:63: warning: documented symbol 'for experimental torsion angle RDKit::DGeomHelpers::preferences' was not declared or defined. /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/ShapeOverlayOptions.h:23: warning: documented symbol 'enum RDKIT_GAUSSIANSHAPE_EXPORT RDKit::GaussianShape::StartMode' was not declared or defined. /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/ShapeOverlayOptions.h:40: warning: documented symbol 'enum RDKIT_GAUSSIANSHAPE_EXPORT RDKit::GaussianShape::OptimMode' was not declared or defined. /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolOps.h:1255: warning: documented symbol 'modifies molecule in RDKit::MolOps::place' was not declared or defined. /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolOps.h:1271: warning: documented symbol 'modifies molecule in RDKit::MolOps::place' was not declared or defined. /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Pipeline.h:90: warning: documented symbol 'enum RDKIT_MOLSTANDARDIZE_EXPORT RDKit::MolStandardize::PipelineStatus' was not declared or defined. rdkit-202603.2/Code/Numerics/Optimizer/BFGSOpt.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Numerics/Optimizer/BFGSOpt.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Numerics/SquareMatrix.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Numerics/SquareMatrix.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Numerics/SymmMatrix.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Numerics/SymmMatrix.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Numerics/Vector.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Numerics/Vector.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Geometry/Grid3D.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Geometry/Grid3D.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Geometry/GridUtils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Geometry/GridUtils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Geometry/point.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Geometry/point.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Geometry/Transform.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Geometry/Transform.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Geometry/Transform2D.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Geometry/Transform2D.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Geometry/Transform3D.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Geometry/Transform3D.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Geometry/UniformGrid3D.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Geometry/UniformGrid3D.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Geometry/UniformRealValueGrid3D.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Geometry/UniformRealValueGrid3D.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Geometry/Utils.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Geometry/Utils.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/Features/Feature.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/Features/Feature.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ChemicalFeatures/ChemicalFeature.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ChemicalFeatures/ChemicalFeature.h... Preprocessing /build/reproducible-path/rdkit-202603.2/Code/ChemicalFeatures/FreeChemicalFeature.h... Parsing file /build/reproducible-path/rdkit-202603.2/Code/ChemicalFeatures/FreeChemicalFeature.h... Building macro definition list... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Building concept list... Computing nesting relations for classes... Associating documentation with classes... Associating documentation with concepts... Associating documentation with modules... Building example list... Searching for enumerations... Searching for documented typedefs... Searching for members imported via using declarations... Searching for included using directives... Searching for documented variables... Building interface member list... Building member list... Searching for friends... Searching for documented defines... Computing class inheritance relations... Computing class usage relations... Flushing cached template relations that have become invalid... Warn for undocumented namespaces... Computing class relations... Add enum values to enums... Searching for member function documentation... Creating members for template instances... Building page list... Search for main page... Computing page relations... Determining the scope of groups... Computing module relations... Sorting lists... Determining which enums are documented Computing member relations... Building full member lists recursively... Adding members to member groups. Computing member references... Inheriting documentation... Generating disk /build/reproducible-path/rdkit-202603.2/Code/GraphMol/QueryOps.h:572: warning: Found unknown command '\overloadquery' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h:80: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h:135: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h:209: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h:84: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h:139: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h:213: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/QueryOps.h:563: warning: Found unknown command '\overloadquery' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h:77: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h:132: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h:206: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h:87: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h:142: warning: Found unknown command '\override' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/MolEnumerator.h:216: warning: Found unknown command '\override' 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 FiniteDifference.h... Generating code for file ForceField.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 Nonbonded.h... Generating code for file Nonbonded.h... Generating code for file OopBend.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 StretchBend.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 Inversion.h... Generating code for file Inversions.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 TemplateSmarts.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 DCLV_dots.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 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 AtomTyper.h... Generating code for file AtomTyper.h... Generating code for file Builder.h... Generating code for file Builder.h... Generating code for file MMFF.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 GaussianShape.h... Generating code for file ShapeInput.h... Generating code for file ShapeOverlayOptions.h... Generating code for file SingleConformerAlignment.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 details.h... Generating code for file details.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 Subset.h... Generating code for file SubstanceGroup.h... Generating code for file SubstructMatch.h... Generating code for file SubstructUtils.h... Generating code for file PatternFactory.h... Generating code for file SubstructLibrary.h... Generating code for file SubstructLibrarySerialization.h... Generating code for file MemoryMappedFileReader.h... Generating code for file SearchResults.h... Generating code for file Synthon.h... Generating code for file SynthonSet.h... Generating code for file SynthonSpace.h... Generating code for file SynthonSpaceFingerprintSearcher.h... Generating code for file SynthonSpaceHitSet.h... Generating code for file SynthonSpaceRascalSearcher.h... Generating code for file SynthonSpaceSearch_details.h... Generating code for file SynthonSpaceSearcher.h... Generating code for file SynthonSpaceSubstructureSearcher.h... Generating code for file TautomerQuery.h... Generating code for file Snapshot.h... Generating code for file Trajectory.h... Generating code for file CorrMatGenerator.h... Generating code for file InfoBitRanker.h... Generating code for file InfoGainFuncs.h... Generating code for file AlignPoints.h... Generating code for file Conrec.h... Generating code for file PowerEigenSolver.h... Generating code for file Matrix.h... Generating code for file BFGSOpt.h... Generating code for file SquareMatrix.h... Generating code for file SymmMatrix.h... Generating code for file Vector.h... Generating code for file AndQuery.h... Generating code for file EqualityQuery.h... Generating code for file GreaterEqualQuery.h... Generating code for file GreaterQuery.h... Generating code for file LessEqualQuery.h... Generating code for file LessQuery.h... Generating code for file NullQueryAlgebra.h... Generating code for file OrQuery.h... 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 JSONHelpers.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 FiniteDifference.h... Generating docs for file ForceField.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 Nonbonded.h... Generating docs for file Nonbonded.h... Generating docs for file OopBend.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 StretchBend.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 Inversion.h... Generating docs for file Inversions.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 TemplateSmarts.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 DCLV_dots.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 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 AtomTyper.h... Generating docs for file AtomTyper.h... Generating docs for file Builder.h... Generating docs for file Builder.h... Generating docs for file MMFF.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 GaussianShape.h... Generating docs for file ShapeInput.h... Generating docs for file ShapeOverlayOptions.h... Generating docs for file SingleConformerAlignment.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 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 details.h... Generating docs for file details.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... Generating docs for file SLNParseOps.h... Generating docs for file CanonicalizeStereoGroups.h... Generating docs for file SmartsWrite.h... Generating docs for file SmilesJSONParsers.h... Generating docs for file SmilesParse.h... Generating docs for file SmilesParseOps.h... Generating docs for file SmilesWrite.h... Generating docs for file StereoGroup.h... Generating docs for file Pattern.h... Generating docs for file ReCharge.h... Generating docs for file Stereo.h... Generating docs for file StripSmallFragments.h... Generating docs for file StructChecker.h... Generating docs for file StructCheckerOptions.h... Generating docs for file Tautomer.h... Generating docs for file Tautomer.h... Generating docs for file Utilites.h... Generating docs for file Subgraphs.h... Generating docs for file SubgraphUtils.h... Generating docs for file Subset.h... Generating docs for file SubstanceGroup.h... Generating docs for file SubstructMatch.h... Generating docs for file SubstructUtils.h... Generating docs for file PatternFactory.h... Generating docs for file SubstructLibrary.h... Generating docs for file SubstructLibrarySerialization.h... Generating docs for file MemoryMappedFileReader.h... Generating docs for file SearchResults.h... Generating docs for file Synthon.h... Generating docs for file SynthonSet.h... Generating docs for file SynthonSpace.h... Generating docs for file SynthonSpaceFingerprintSearcher.h... Generating docs for file SynthonSpaceHitSet.h... Generating docs for file SynthonSpaceRascalSearcher.h... Generating docs for file SynthonSpaceSearch_details.h... Generating docs for file SynthonSpaceSearcher.h... Generating docs for file SynthonSpaceSubstructureSearcher.h... Generating docs for file TautomerQuery.h... Generating docs for file Snapshot.h... Generating docs for file Trajectory.h... Generating docs for file CorrMatGenerator.h... Generating docs for file InfoBitRanker.h... Generating docs for file InfoGainFuncs.h... Generating docs for file AlignPoints.h... 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 file hanoiSort.h... Generating docs for file Invariant.h... Generating docs for file JSONHelpers.h... Generating docs for file LocaleSwitcher.h... Generating docs for file Ranking.h... Generating docs for file RDAny.h... Generating docs for file RDConfig.h... Generating docs for file RDExportMacros.h... Generating docs for file RDLog.h... Generating docs for file RDProps.h... Generating docs for file RDThreads.h... Generating docs for file RDValue-doublemagic.h... Generating docs for file RDValue-taggedunion.h... Generating docs for file RDValue.h... Generating docs for file StreamOps.h... Generating docs for file types.h... Generating docs for file utils.h... Generating docs for file versions.h... Generating docs for file DistPicker.h... Generating docs for file HierarchicalClusterPicker.h... Generating docs for file LeaderPicker.h... Generating docs for file MaxMinPicker.h... Generating page documentation... Generating docs for page deprecated... Generating group documentation... Generating class documentation... Generating docs for compound BitVect... Generating docs for compound Data3Ddescriptors... Generating docs for compound DatastructsException... Generating docs for compound ExplicitBitVect... Generating docs for compound IndexErrorException... Generating docs for compound KeyErrorException... Generating docs for compound MolData3Ddescriptors... Generating docs for compound Point2D... Generating docs for compound PySequenceHolder< T >... Generating docs for compound set< K >... Generating docs for nested compound set< K >::iterator... Generating docs for nested compound set< K >::const_iterator... Generating docs for nested compound set< K >::reverse_iterator... Generating docs for n/build/reproducible-path/rdkit-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/Code/ForceField/AngleConstraints.h:64: 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-202603.2/Code/ForceField/AngleConstraints.h:64: 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-202603.2/Code/ForceField/AngleConstraints.h:64: 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-202603.2/Code/ForceField/AngleConstraints.h:52: 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-202603.2/Code/ForceField/AngleConstraints.h:52: 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-202603.2/Code/ForceField/AngleConstraints.h:52: 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-202603.2/Code/ForceField/DistanceConstraints.h:60: 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-202603.2/Code/ForceField/DistanceConstraints.h:60: 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-202603.2/Code/ForceField/DistanceConstraints.h:49: 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-202603.2/Code/ForceField/DistanceConstraints.h:49: warning: The following parameter of ForceFields::DistanceConstraintContribs::addContrib(unsigned int idx1, unsigned int idx2, double minLen, double maxLen, double forceConstant) is not documented: parameter 'forceConstant' /build/reproducible-path/rdkit-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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' ested compound set< K >::const_reverse_iterator... Generating docs for compound SparseBitVect... Generating docs for compound ValueErrorException... Generating concept documentation... Generating module documentation... Generating namespace documentation... Generating docs for namespace better_enums Generating docs for compound better_enums::optional< T >... Generating docs for compound better_enums::_eat_assign< EnumType >... Generating docs for compound better_enums::_iterable< Element >... Generating docs for compound better_enums::_initialize_at_program_start< Enum >... Generating docs for compound better_enums::map_compare< T >... Generating docs for compound better_enums::map_compare< const char * >... Generating docs for compound better_enums::map_compare< const wchar_t * >... Generating docs for compound better_enums::map< Enum, T, Compare >... Generating docs for namespace BFGSOpt Generating docs for namespace boost Generating docs for namespace boost::logging Generating docs for compound boost::logging::rdLogger... Generating docs for namespace boost::serialization Generating docs for namespace boost_adaptbx Generating docs for namespace boost_adaptbx::python Generating docs for compound boost_adaptbx::python::streambuf... Generating docs for nested compound boost_adaptbx::python::streambuf::istream... Generating docs for nested compound boost_adaptbx::python::streambuf::ostream... Generating docs for compound boost_adaptbx::python::streambuf_capsule... Generating docs for compound boost_adaptbx::python::ostream... Generating docs for namespace ChemicalFeatures Generating docs for compound ChemicalFeatures::ChemicalFeature... Generating docs for compound ChemicalFeatures::FreeChemicalFeature... Generating docs for namespace conrec Generating docs for compound conrec::ConrecSegment... Generating docs for compound conrec::tplHash... Generating docs for namespace DistGeom Generating docs for compound DistGeom::BoundsMatrix... Generating docs for compound DistGeom::ChiralSet... Generating docs for compound DistGeom::ChiralViolationContribsParams... Generating docs for compound DistGeom::ChiralViolationContribs... Generating docs for compound DistGeom::DistViolationContribsParams... Generating docs for compound DistGeom::DistViolationContribs... Generating docs for compound DistGeom::FourthDimContribsParams... Generating docs for compound DistGeom::FourthDimContribs... Generating docs for namespace ForceFields Generating docs for compound ForceFields::AngleConstraintContrib... Generating docs for compound ForceFields::AngleConstraintContribsParams... Generating docs for compound ForceFields::AngleConstraintContribs... Generating docs for compound ForceFields::ForceFieldContrib... Generating docs for compound ForceFields::DistanceConstraintContrib... Generating docs for compound ForceFields::DistanceConstraintContribsParams... Generating docs for compound ForceFields::DistanceConstraintContribs... Generating docs for compound ForceFields::ForceField... Generating docs for compound ForceFields::PositionConstraintContrib... Generating docs for compound ForceFields::TorsionConstraintContrib... Generating docs for namespace ForceFields::CrystalFF Generating docs for compound ForceFields::CrystalFF::TorsionAngleContribsParams... Generating docs for compound ForceFields::CrystalFF::TorsionAngleContribs... Generating docs for compound ForceFields::CrystalFF::TorsionAngleContribM6... Generating docs for compound ForceFields::CrystalFF::ExpTorsionAngle... Generating docs for compound ForceFields::CrystalFF::CrystalFFDetails... Generating docs for namespace ForceFields::MMFF Generating docs for compound ForceFields::MMFF::AngleBendContrib... Generating docs for compound ForceFields::MMFF::BondStretchContrib... Generating docs for compound ForceFields::MMFF::NonbondedContrib... Generating docs for compound ForceFields::MMFF::VdWContrib... Generating docs for compound ForceFields::MMFF::EleContrib... Generating docs for compound ForceFields::MMFF::OopBendContrib... Generating docs for compound ForceFields::MMFF::MMFFDef... Gener/build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/StretchBend.h:33: 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-202603.2/Code/ForceField/MMFF/StretchBend.h:33: 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-202603.2/Code/ForceField/MMFF/TorsionAngle.h:34: 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-202603.2/Code/ForceField/MMFF/TorsionAngle.h:34: 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-202603.2/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' ating docs for compound ForceFields::MMFF::MMFFProp... Generating docs for compound ForceFields::MMFF::MMFFPBCI... Generating docs for compound ForceFields::MMFF::MMFFChg... Generating docs for compound ForceFields::MMFF::MMFFBond... Generating docs for compound ForceFields::MMFF::MMFFHerschbachLaurie... Generating docs for compound ForceFields::MMFF::MMFFCovRadPauEle... Generating docs for compound ForceFields::MMFF::MMFFAngle... Generating docs for compound ForceFields::MMFF::MMFFStbn... Generating docs for compound ForceFields::MMFF::MMFFOop... Generating docs for compound ForceFields::MMFF::MMFFTor... Generating docs for compound ForceFields::MMFF::MMFFVdW... Generating docs for compound ForceFields::MMFF::MMFFVdWRijstarEps... Generating docs for compound ForceFields::MMFF::MMFFAromCollection... Generating docs for compound ForceFields::MMFF::MMFFDefCollection... Generating docs for compound ForceFields::MMFF::MMFFPropCollection... Generating docs for compound ForceFields::MMFF::MMFFPBCICollection... Generating docs for compound ForceFields::MMFF::MMFFChgCollection... Generating docs for compound ForceFields::MMFF::MMFFBondCollection... Generating docs for compound ForceFields::MMFF::MMFFBndkCollection... Generating docs for compound ForceFields::MMFF::MMFFHerschbachLaurieCollection... Generating docs for compound ForceFields::MMFF::MMFFCovRadPauEleCollection... Generating docs for compound ForceFields::MMFF::MMFFAngleCollection... Generating docs for compound ForceFields::MMFF::MMFFStbnCollection... Generating docs for compound ForceFields::MMFF::MMFFDfsbCollection... Generating docs for compound ForceFields::MMFF::MMFFOopCollection... Generating docs for compound ForceFields::MMFF::MMFFTorCollection... Generating docs for compound ForceFields::MMFF::MMFFVdWCollection... Generating docs for compound ForceFields::MMFF::StretchBendContrib... Generating docs for compound ForceFields::MMFF::TorsionAngleContrib... Generating docs for namespace ForceFields::MMFF::Utils Generating docs for namespace ForceFields::UFF Generating docs for compound ForceFields::UFF::AngleBendContrib... Generating docs for compound ForceFields::UFF::BondStretchContrib... Generating docs for compound ForceFields::UFF::InversionContrib... Generating docs for compound ForceFields::UFF::InversionContribsParams... Generating docs for compound ForceFields::UFF::InversionContribs... Generating docs for compound ForceFields::UFF::vdWContrib... Generating docs for compound ForceFields::UFF::UFFBond... Generating docs for compound ForceFields::UFF::UFFAngle... Generating docs for compound ForceFields::UFF::UFFTor... Generating docs for compound ForceFields::UFF::UFFInv... Generating docs for compound ForceFields::UFF::UFFVdW... Generating docs for compound ForceFields::UFF::AtomicParams... Generating docs for compound ForceFields::UFF::ParamCollection... Generating docs for compound ForceFields::UFF::TorsionAngleContrib... Generating docs for namespace ForceFields::UFF::Params Generating docs for namespace ForceFields::UFF::Utils Generating docs for namespace Invar Generating docs for compound Invar::Invariant... Generating docs for namespace MolTransforms Generating docs for namespace Queries Generating docs for compound Queries::AndQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::EqualityQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::GreaterEqualQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::GreaterQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::LessEqualQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::LessQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::OrQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::Int2Type< v >... Generating docs for compound Queries::Query< MatchFuncArgType, DataFun/build/reproducible-path/rdkit-202603.2/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-202603.2/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-202603.2/Code/GraphMol/SubstanceGroup.h:282: warning: The following parameter of RDKit::addSubstanceGroup(ROMol &mol, SubstanceGroup sgroup) is not documented: parameter 'mol' /build/reproducible-path/rdkit-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/Code/GraphMol/MarvinParse/MarvinParser.h:179: 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-202603.2/Code/GraphMol/MarvinParse/MarvinParser.h:154: 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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/Code/GraphMol/Substruct/SubstructMatch.h:99: 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-202603.2/Code/GraphMol/Substruct/SubstructMatch.h:99: 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-202603.2/Code/GraphMol/Substruct/SubstructMatch.h:129: 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-202603.2/Code/GraphMol/Substruct/SubstructMatch.h:129: 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-202603.2/Code/GraphMol/Substruct/SubstructMatch.h:184: 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-202603.2/Code/GraphMol/Substruct/SubstructMatch.h:113: warning: argument 'matchParams' of command @param is not found in the argument list of RDKit::SubstructMatchCount(const ROMol &mol, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Substruct/SubstructMatch.h:113: warning: The following parameter of RDKit::SubstructMatchCount(const ROMol &mol, const ROMol &query, const SubstructMatchParameters ¶ms=SubstructMatchParameters()) is not documented: parameter 'params' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Reaction.h:220: 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-202603.2/Code/GraphMol/ChemReactions/Reaction.h:220: warning: The following parameter of RDKit::ChemicalReaction::runReactants(const MOL_SPTR_VECT reactants, unsigned int numProducts=1000) const is not documented: parameter 'numProducts' cArgType, needsConversion >... Generating docs for compound Queries::RangeQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::SetQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for compound Queries::XOrQuery< MatchFuncArgType, DataFuncArgType, needsConversion >... Generating docs for namespace Rankers Generating docs for namespace RDCatalog Generating docs for compound RDCatalog::Catalog< entryType, paramType >... Generating docs for compound RDCatalog::HierarchCatalog< entryType, paramType, orderType >... Generating docs for nested compound RDCatalog::HierarchCatalog< entryType, paramType, orderType >::vertex_entry_t... Generating docs for compound RDCatalog::CatalogEntry... Generating docs for compound RDCatalog::CatalogParams... Generating docs for namespace RDDataManip Generating docs for compound RDDataManip::MetricMatrixCalc< vectType, entryType >... Generating docs for namespace RDDepict Generating docs for compound RDDepict::gtIIPair... Generating docs for compound RDDepict::EmbeddedAtom... Generating docs for compound RDDepict::EmbeddedFrag... Generating docs for compound RDDepict::DepictException... Generating docs for compound RDDepict::Compute2DCoordParameters... Generating docs for compound RDDepict::ConstrainedDepictionParams... Generating docs for compound RDDepict::CoordinateTemplates... Generating docs for namespace RDFeatures Generating docs for compound RDFeatures::ExplicitFeature< FAMILYMARKER, TYPEMARKER, LOCTYPE >... Generating docs for compound RDFeatures::ImplicitFeature< FAMILYMARKER, TYPEMARKER, LOCTYPE >... Generating docs for namespace RDGeom Generating docs for compound RDGeom::GridException... Generating docs for compound RDGeom::Grid3D< VectorType, ValueType1, ValueType2 >... Generating docs for compound RDGeom::Point... Generating docs for compound RDGeom::Point3D... Generating docs for compound RDGeom::Point2D... Generating docs for compound RDGeom::PointND... Generating docs for compound RDGeom::Transform2D... Generating docs for compound RDGeom::Transform3D... Generating docs for compound RDGeom::UniformGrid3D... Generating docs for compound RDGeom::UniformRealValueGrid3D... Generating docs for namespace RDInfoTheory Generating docs for compound RDInfoTheory::BitCorrMatGenerator... Generating docs for compound RDInfoTheory::InfoBitRanker... Generating docs for namespace RDKit Generating docs for compound RDKit::Atom... Generating docs for compound RDKit::atomicData... Generating docs for compound RDKit::AtomIterator_< Atom_, Mol_ >... Generating docs for compound RDKit::HeteroatomIterator_< Atom_, Mol_ >... Generating docs for compound RDKit::AromaticAtomIterator_< Atom_, Mol_ >... Generating docs for compound RDKit::QueryAtomIterator_< Atom_, Mol_ >... Generating docs for compound RDKit::MatchingAtomIterator_< Atom_, Mol_ >... Generating docs for compound RDKit::Bond... Generating docs for compound RDKit::BondIterator_... Generating docs for compound RDKit::ConstBondIterator_... Generating docs for compound RDKit::CartesianProductStrategy... Generating docs for compound RDKit::EnumerationParams... Generating docs for compound RDKit::EnumerateLibrary... Generating docs for compound RDKit::EnumerateLibraryBase... Generating docs for compound RDKit::EnumerationStrategyException... Generating docs for compound RDKit::EnumerationStrategyBase... Generating docs for compound RDKit::EvenSamplePairsStrategy... Generating docs for compound RDKit::RandomSampleStrategy... Generating docs for compound RDKit::RandomSampleAllBBsStrategy... Generating docs for compound RDKit::ChemicalReactionException... Generating docs for compound RDKit::ChemicalReaction... Generating docs for compound RDKit::ReactionFingerprintParams... Generating docs for compound RDKit::ChemicalReactionParserException... Generating docs for compound RDKit::ReactionPicklerException... Generating docs for compound RDKit::ReactionPickler... Generating docs for compound RDKit::RxnSanitizeException... Generating docs for compound RDKit::MolzipParams... Gen/build/reproducible-path/rdkit-202603.2/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-202603.2/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:98: warning: The following parameter of RDKit::FilterMatcherBase::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const=0 is not documented: parameter 'matchVect' /build/reproducible-path/rdkit-202603.2/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-202603.2/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /build/reproducible-path/rdkit-202603.2/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-202603.2/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-202603.2/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /build/reproducible-path/rdkit-202603.2/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-202603.2/Code/GraphMol/Fingerprints/FingerprintGenerator.h:136: 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' /build/reproducible-path/rdkit-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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' erating docs for compound RDKit::ConformerException... Generating docs for compound RDKit::Conformer... Generating docs for compound RDKit::MaxFindBondOrdersItersExceeded... Generating docs for compound RDKit::MolWriterParams... Generating docs for compound RDKit::StereoBondThresholds... Generating docs for compound RDKit::MolWriter... Generating docs for compound RDKit::SmilesWriter... Generating docs for compound RDKit::SDWriter... Generating docs for compound RDKit::TDTWriter... Generating docs for compound RDKit::PDBWriter... Generating docs for compound RDKit::PNGMetadataParams... Generating docs for compound RDKit::FilterCatalogParams... Generating docs for compound RDKit::FilterCatalog... Generating docs for compound RDKit::FilterCatalogEntry... Generating docs for compound RDKit::FilterMatch... Generating docs for compound RDKit::FilterMatcherBase... Generating docs for compound RDKit::SmartsMatcher... Generating docs for compound RDKit::ExclusionList... Generating docs for compound RDKit::FilterHierarchyMatcher... Generating docs for compound RDKit::FilterData_t... Generating docs for compound RDKit::FilterProperty_t... Generating docs for compound RDKit::AdditionalOutput... Generating docs for compound RDKit::FingerprintArguments... Generating docs for compound RDKit::AtomEnvironment< OutputType >... Generating docs for compound RDKit::AtomEnvironmentGenerator< OutputType >... Generating docs for compound RDKit::AtomInvariantsGenerator... Generating docs for compound RDKit::BondInvariantsGenerator... Generating docs for compound RDKit::FingerprintFuncArguments... Generating docs for compound RDKit::FingerprintGenerator< OutputType >... Generating docs for compound RDKit::UnimplementedFPException... Generating docs for compound RDKit::MCSAtomCompareParameters... Generating docs for compound RDKit::MCSBondCompareParameters... Generating docs for compound RDKit::MCSProgressData... Generating docs for compound RDKit::MCSParameters... Generating docs for compound RDKit::MCSResult... Generating docs for compound RDKit::FragCatalogEntry... Generating docs for compound RDKit::FragCatGenerator... Generating docs for compound RDKit::FragCatParams... Generating docs for compound RDKit::FragFPGenerator... Generating docs for compound RDKit::MarvinWriterException... Generating docs for compound RDKit::MarvinArrow... Generating docs for compound RDKit::MarvinPlus... Generating docs for compound RDKit::MarvinCondition... Generating docs for compound RDKit::MarvinAttachmentPoint... Generating docs for compound RDKit::MarvinAtom... Generating docs for compound RDKit::MarvinBondStereo... Generating docs for compound RDKit::MarvinBond... Generating docs for compound RDKit::MarvinRectangle... Generating docs for compound RDKit::MarvinMolBase... Generating docs for compound RDKit::MarvinSruCoModSgroup... Generating docs for compound RDKit::MarvinDataSgroup... Generating docs for compound RDKit::MarvinSuperatomSgroupExpanded... Generating docs for compound RDKit::MarvinMultipleSgroup... Generating docs for compound RDKit::MarvinMulticenterSgroup... Generating docs for compound RDKit::MarvinGenericSgroup... Generating docs for compound RDKit::MarvinMonomerSgroup... Generating docs for compound RDKit::MarvinSuperatomSgroup... Generating docs for compound RDKit::MarvinMol... Generating docs for compound RDKit::MarvinReaction... Generating docs for compound RDKit::MarvinStereoGroup... Generating docs for compound RDKit::MrvWriterParams... Generating docs for compound RDKit::MolBundle... Generating docs for compound RDKit::FixedMolSizeMolBundle... Generating docs for compound RDKit::MolCatalogEntry... Generating docs for compound RDKit::MolCatalogParams... Generating docs for compound RDKit::FeatureFileParseException... Generating docs for compound RDKit::MolChemicalFeature... Generating docs for compound RDKit::MolChemicalFeatureDef... Generating docs for compound RDKit::MolChemicalFeatureFactory... Generating docs for compound RDKit::MolDraw2D... Generating docs for compound RDKit::MolDraw2DCairo... Generating docs for compound RDKit::/build/reproducible-path/rdkit-202603.2/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) DrawColour... Generating docs for compound RDKit::MolDrawOptions... Generating docs for compound RDKit::MolDraw2DJS... Generating docs for compound RDKit::MolDraw2DSVG... Generating docs for compound RDKit::MolDraw2Dwx... Generating docs for compound RDKit::MolDraw2DQt... Generating docs for compound RDKit::MolPicklerException... Generating docs for compound RDKit::MolPickler... Generating docs for compound RDKit::AtomMonomerInfo... Generating docs for compound RDKit::AtomPDBResidueInfo... Generating docs for compound RDKit::GasteigerParams... Generating docs for compound RDKit::PeriodicTable... Generating docs for compound RDKit::QueryAtom... Generating docs for compound RDKit::QueryBond... Generating docs for compound RDKit::AtomRingQuery... Generating docs for compound RDKit::RecursiveStructureQuery... Generating docs for compound RDKit::HasPropQuery< TargetPtr >... Generating docs for compound RDKit::HasPropWithValueQueryBase... Generating docs for compound RDKit::HasPropWithValueQuery< TargetPtr, T >... Generating docs for compound RDKit::HasPropWithValueQuery< TargetPtr, std::string >... Generating docs for compound RDKit::HasPropWithValueQuery< TargetPtr, ExplicitBitVect >... Generating docs for compound RDKit::ResonanceMolSupplierCallback... Generating docs for compound RDKit::ResonanceMolSupplier... Generating docs for compound RDKit::RCore... Generating docs for compound RDKit::RGroupData... Generating docs for compound RDKit::RGroupDecompositionProcessResult... Generating docs for compound RDKit::UsedLabelMap... Generating docs for compound RDKit::RGroupDecomposition... Generating docs for compound RDKit::RGroupDecompData... Generating docs for nested compound RDKit::RGroupDecompData::UsedLabels... Generating docs for compound RDKit::RGroupDecompositionParameters... Generating docs for compound RDKit::VarianceDataForLabel... Generating docs for compound RDKit::FingerprintVarianceScoreData... Generating docs for compound RDKit::RGroupDecompositionChromosome... Generating docs for compound RDKit::GaResult... Generating docs for compound RDKit::RGroupGa... Generating docs for compound RDKit::RGroupMatch... Generating docs for compound RDKit::CartesianProduct... Generating docs for compound RDKit::RGroupScorer... Generating docs for compound RDKit::RingInfo... Generating docs for compound RDKit::CXXAtomIterator< Graph, Vertex, Iterator >... Generating docs for nested compound RDKit::CXXAtomIterator< Graph, Vertex, Iterator >::CXXAtomIter... Generating docs for compound RDKit::CXXBondIterator< Graph, Edge, Iterator >... Generating docs for nested compound RDKit::CXXBondIterator< Graph, Edge, Iterator >::CXXBondIter... Generating docs for compound RDKit::ROMol... Generating docs for compound RDKit::RWMol... Generating docs for compound RDKit::MolSanitizeException... Generating docs for compound RDKit::AtomSanitizeException... Generating docs for compound RDKit::AtomValenceException... Generating docs for compound RDKit::AtomKekulizeException... Generating docs for compound RDKit::KekulizeException... Generating docs for compound RDKit::SLNParseException... Generating docs for compound RDKit::RigorousEnhancedStereoException... Generating docs for compound RDKit::SmilesWriteParams... Generating docs for compound RDKit::StereoGroup... Generating docs for compound RDKit::SubsetOptions... Generating docs for compound RDKit::SubsetInfo... Generating docs for compound RDKit::SubstanceGroupException... Generating docs for compound RDKit::SubstanceGroup... Generating docs for nested compound RDKit::SubstanceGroup::AttachPoint... Generating docs for nested compound RDKit::SubstanceGroup::CState... Generating docs for compound RDKit::SubstructMatchParameters... Generating docs for compound RDKit::MolMatchFinalCheckFunctor... Generating docs for compound RDKit::AtomCoordsMatchFunctor... Generating docs for compound RDKit::MolHolderBase... Generating docs for compound RDKit::MolHolder... Generating docs for compound RDKit::CachedMolHolder... Generating docs for compound RDKit::CachedSmilesMolHolder... Generating docs for compoun/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Abbreviations/Abbreviations.h:106: 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-202603.2/Code/GraphMol/Fingerprints/FingerprintGenerator.h:136: 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-202603.2/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-202603.2/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-202603.2/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-202603.2/Code/GraphMol/Chirality.h:425: 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-202603.2/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-202603.2/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-202603.2/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' d RDKit::CachedTrustedSmilesMolHolder... Generating docs for compound RDKit::FPHolderBase... Generating docs for compound RDKit::PatternHolder... Generating docs for compound RDKit::TautomerPatternHolder... Generating docs for compound RDKit::KeyHolderBase... Generating docs for compound RDKit::KeyFromPropHolder... Generating docs for compound RDKit::SubstructLibrary... Generating docs for compound RDKit::TautomerQuery... Generating docs for compound RDKit::Snapshot... Generating docs for compound RDKit::Trajectory... Generating docs for compound RDKit::DataStructsExplicitBitVecPropHandler... Generating docs for compound RDKit::DiscreteDistMat... Generating docs for compound RDKit::DiscreteValueVect... Generating docs for compound RDKit::FPBReader... Generating docs for compound RDKit::MultiFPBReader... Generating docs for compound RDKit::RealValueVect... Generating docs for compound RDKit::SparseIntVect< IndexType >... Generating docs for compound RDKit::BadFileException... Generating docs for compound RDKit::ControlCCaught... Generating docs for compound RDKit::ControlCHandler... Generating docs for compound RDKit::Dict... Generating docs for nested compound RDKit::Dict::Pair... Generating docs for compound RDKit::PairHolder... Generating docs for compound RDKit::FileParseException... Generating docs for compound RDKit::RDAny... Generating docs for compound RDKit::RDProps... Generating docs for compound RDKit::RDValue... Generating docs for compound RDKit::CustomPropHandler... Generating docs for compound RDKit::ltDouble... Generating docs for compound RDKit::larger_of< T >... Generating docs for compound RDKit::charptr_functor... Generating docs for compound RDKit::ExtendedQueryMol... Generating docs for namespace RDKit::Abbreviations Generating docs for compound RDKit::Abbreviations::AbbreviationDefinition... Generating docs for compound RDKit::Abbreviations::AbbreviationMatch... Generating docs for namespace RDKit::Abbreviations::common_properties Generating docs for namespace RDKit::Abbreviations::Utils Generating docs for namespace RDKit::AtomPair Generating docs for compound RDKit::AtomPair::AtomPairAtomInvGenerator... Generating docs for compound RDKit::AtomPair::AtomPairArguments... Generating docs for compound RDKit::AtomPair::AtomPairAtomEnv< OutputType >... Generating docs for compound RDKit::AtomPair::AtomPairEnvGenerator< OutputType >... Generating docs for namespace RDKit::AtomPairs Generating docs for namespace RDKit::Atropisomers Generating docs for namespace RDKit::Canon Generating docs for compound RDKit::Canon::MolStackUnion... Generating docs for compound RDKit::Canon::MolStackElem... Generating docs for compound RDKit::Canon::bondholder... Generating docs for compound RDKit::Canon::canon_atom... Generating docs for compound RDKit::Canon::SpecialChiralityAtomCompareFunctor... Generating docs for compound RDKit::Canon::SpecialSymmetryAtomCompareFunctor... Generating docs for compound RDKit::Canon::AtomCompareFunctor... Generating docs for compound RDKit::Canon::ChiralAtomCompareFunctor... Generating docs for namespace RDKit::Canon::detail Generating docs for namespace RDKit::Chirality Generating docs for compound RDKit::Chirality::StereoInfo... Generating docs for compound RDKit::Chirality::BondWedgingParameters... Generating docs for compound RDKit::Chirality::WedgeInfoBase... Generating docs for compound RDKit::Chirality::WedgeInfoChiral... Generating docs for compound RDKit::Chirality::WedgeInfoAtropisomer... Generating docs for namespace RDKit::Chirality::detail Generating docs for namespace RDKit::CIPLabeler Generating docs for compound RDKit::CIPLabeler::MaxIterationsExceeded... Generating docs for compound RDKit::CIPLabeler::CIPMolSpan< T, U >... Generating docs for nested compound RDKit::CIPLabeler::CIPMolSpan< T, U >::CIPMolIter... Generating docs for compound RDKit::CIPLabeler::CIPMol... Generating docs for compound RDKit::CIPLabeler::AtropisomerBond... Generating docs for compound RDKit::CIPLabeler::Configuration... Generating docs for compound RDKit::CIPLabeler::Sp2Bond... Generating docs/build/reproducible-path/rdkit-202603.2/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-202603.2/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-202603.2/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-202603.2/Code/GraphMol/DistGeomHelpers/Embedder.h:332: 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-202603.2/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.h:37: warning: The following parameters of RDKit::DGeomHelpers::setTopolBounds(const ROMol &mol, DistGeom::BoundsMatPtr mmat, bool set15bounds=true, bool scaleVDW=false, bool useMacrocycle14config=false, bool forceTransAmides=true, bool set14bounds=true, bool set13bounds=true) are not documented: parameter 'forceTransAmides' parameter 'set14bounds' parameter 'set13bounds' /build/reproducible-path/rdkit-202603.2/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-202603.2/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /build/reproducible-path/rdkit-202603.2/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-202603.2/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-202603.2/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/FilterMatcherBase.h:98: warning: The following parameter of RDKit::FilterMatchOps::Or::getMatches(const ROMol &mol, std::vector< FilterMatch > &matchVect) const is not documented: parameter 'matchVect' /build/reproducible-path/rdkit-202603.2/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-202603.2/Code/GraphMol/FilterCatalog/FilterMatcherBase.h /build/reproducible-path/rdkit-202603.2/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' for compound RDKit::CIPLabeler::Tetrahedral... Generating docs for compound RDKit::CIPLabeler::Digraph... Generating docs for compound RDKit::CIPLabeler::Edge... Generating docs for compound RDKit::CIPLabeler::Node... Generating docs for compound RDKit::CIPLabeler::Priority... Generating docs for compound RDKit::CIPLabeler::PairList... Generating docs for compound RDKit::CIPLabeler::Rule1a... Generating docs for compound RDKit::CIPLabeler::Rule1b... Generating docs for compound RDKit::CIPLabeler::Rule2... Generating docs for compound RDKit::CIPLabeler::Rule3... Generating docs for compound RDKit::CIPLabeler::Rule4a... Generating docs for compound RDKit::CIPLabeler::Rule4b... Generating docs for compound RDKit::CIPLabeler::Rule4c... Generating docs for compound RDKit::CIPLabeler::Rule5... Generating docs for compound RDKit::CIPLabeler::Rule5New... Generating docs for compound RDKit::CIPLabeler::Rule6... Generating docs for compound RDKit::CIPLabeler::Rules... Generating docs for compound RDKit::CIPLabeler::SequenceRule... Generating docs for compound RDKit::CIPLabeler::Sort... Generating docs for compound RDKit::CIPLabeler::TooManyNodesException... Generating docs for namespace RDKit::CIPLabeler_detail Generating docs for namespace RDKit::common_properties Generating docs for namespace RDKit::constants Generating docs for namespace RDKit::Deprotect Generating docs for compound RDKit::Deprotect::DeprotectData... Generating docs for namespace RDKit::Descriptors Generating docs for compound RDKit::Descriptors::CrippenParams... Generating docs for compound RDKit::Descriptors::CrippenParamCollection... Generating docs for compound RDKit::Descriptors::DoubleCubicLatticeVolume... Generating docs for compound RDKit::Descriptors::PropertyFunctor... Generating docs for compound RDKit::Descriptors::Properties... Generating docs for namespace RDKit::Descriptors::detail Generating docs for namespace RDKit::detail Generating docs for compound RDKit::detail::MCSParametersInternal... Generating docs for namespace RDKit::details Generating docs for namespace RDKit::DGeomHelpers Generating docs for compound RDKit::DGeomHelpers::EmbedParameters... Generating docs for namespace RDKit::DTags Generating docs for namespace RDKit::EnumerateStereoisomers Generating docs for compound RDKit::EnumerateStereoisomers::StereoEnumerationOptions... Generating docs for compound RDKit::EnumerateStereoisomers::StereoisomerEnumerator... Generating docs for namespace RDKit::EnumerateStereoisomers::details Generating docs for compound RDKit::EnumerateStereoisomers::details::Flipper... Generating docs for compound RDKit::EnumerateStereoisomers::details::AtomFlipper... Generating docs for compound RDKit::EnumerateStereoisomers::details::BondFlipper... Generating docs for compound RDKit::EnumerateStereoisomers::details::StereoGroupFlipper... Generating docs for compound RDKit::EnumerateStereoisomers::details::AtropisomerFlipper... Generating docs for namespace RDKit::EnumerationStrategyPickler Generating docs for namespace RDKit::EnumerationTypes Generating docs for namespace RDKit::FileParsers Generating docs for namespace RDKit::FileParsers::schrodinger Generating docs for namespace RDKit::FileParserUtils Generating docs for namespace RDKit::FilterMatchOps Generating docs for compound RDKit::FilterMatchOps::And... Generating docs for compound RDKit::FilterMatchOps::Or... Generating docs for compound RDKit::FilterMatchOps::Not... Generating docs for namespace RDKit::FMCS Generating docs for compound RDKit::FMCS::Composition2N... Generating docs for compound RDKit::FMCS::ExecStatistics... Generating docs for compound RDKit::FMCS::DuplicatedSeedCache... Generating docs for nested compound RDKit::FMCS::DuplicatedSeedCache::TKey... Generating docs for compound RDKit::FMCS::Graph... Generating docs for compound RDKit::FMCS::TArray2D< T >... Generating docs for compound RDKit::FMCS::MaximumCommonSubgraph... Generating docs for compound RDKit::FMCS::MolFragment... Generating docs for compound RDKit::FMCS::NewBond... Generating docs for compound RDKit::FMCS::Seed... Ge/build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/GaussianShape.h:113: warning: argument 'ref' of command @param is not found in the argument list of RDKit::GaussianShape::ScoreMolecule(const ShapeInput &refShape, const ROMol &fit, const ShapeInputOptions &fitOpts=ShapeInputOptions(), const ShapeOverlayOptions &overlayOpts=ShapeOverlayOptions(), int fitConfId=-1) /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/GaussianShape.h:113: warning: The following parameter of RDKit::GaussianShape::ScoreMolecule(const ShapeInput &refShape, const ROMol &fit, const ShapeInputOptions &fitOpts=ShapeInputOptions(), const ShapeOverlayOptions &overlayOpts=ShapeOverlayOptions(), int fitConfId=-1) is not documented: parameter 'refShape' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/ShapeInput.h:110: warning: The following parameter of RDKit::GaussianShape::ShapeInput::ShapeInput(const ROMol &mol, int confId=-1, const ShapeInputOptions &opts=ShapeInputOptions(), const ShapeOverlayOptions &overlayOpts=ShapeOverlayOptions()) is not documented: parameter 'overlayOpts' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/SingleConformerAlignment.h:37: warning: The following parameters of RDKit::GaussianShape::SingleConformerAlignment::SingleConformerAlignment(const std::vector< double > &ref, const int *refTypes, const boost::dynamic_bitset<> *refCarbonRadii, int nRefShape, int nRefColor, double refShapeVol, double refColorVol, const std::vector< double > &fit, const int *fitTypes, const boost::dynamic_bitset<> *fitCarbonRadii, int nFitShape, int nFitColor, double fitShapeVol, double fitColorVol, const std::array< double, 7 > &initQuatTrans, OptimMode optimMode, double simAlpha, double simBeta, double mixingParam, bool useCutoff, double distCutoff, double shapeConvergenceCriterion, unsigned int maxIts) are not documented: parameter 'initQuatTrans' parameter 'shapeConvergenceCriterion' /build/reproducible-path/rdkit-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/Code/GraphMol/MolAlign/AlignMolecules.h:271: warning: argument 'numThreads' of command @param is not found in the argument list of RDKit::MolAlign::getAllConformerBestRMS(const ROMol &mol, const BestAlignmentParams ¶ms) /build/reproducible-path/rdkit-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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' nerating docs for compound RDKit::FMCS::SeedSet... Generating docs for compound RDKit::FMCS::SubstructureCache... Generating docs for nested compound RDKit::FMCS::SubstructureCache::KeyNumericMetrics... Generating docs for nested compound RDKit::FMCS::SubstructureCache::HashKey... Generating docs for compound RDKit::FMCS::Target... Generating docs for compound RDKit::FMCS::TargetMatch... Generating docs for namespace RDKit::ForceFieldsHelper Generating docs for namespace RDKit::ForceFieldsHelper::detail Generating docs for namespace RDKit::GaussianShape Generating docs for compound RDKit::GaussianShape::ShapeInputOptions... Generating docs for compound RDKit::GaussianShape::ShapeInput... Generating docs for compound RDKit::GaussianShape::ShapeOverlayOptions... Generating docs for compound RDKit::GaussianShape::SingleConformerAlignment... Generating docs for namespace RDKit::GeneralizedSubstruct Generating docs for compound RDKit::GeneralizedSubstruct::ExtendedQueryMol... Generating docs for namespace RDKit::GeneralMolSupplier Generating docs for compound RDKit::GeneralMolSupplier::SupplierOptions... Generating docs for namespace RDKit::GenericGroups Generating docs for namespace RDKit::GenericGroups::Matchers Generating docs for namespace RDKit::Local Generating docs for namespace RDKit::MACCSFingerprints Generating docs for namespace RDKit::MHFPFingerprints Generating docs for compound RDKit::MHFPFingerprints::MHFPEncoder... Generating docs for namespace RDKit::MHFPFingerprints::FNV Generating docs for namespace RDKit::MMFF Generating docs for compound RDKit::MMFF::MMFFAtomProperties... Generating docs for compound RDKit::MMFF::MMFFMolProperties... Generating docs for namespace RDKit::MMFF::DefaultParameters Generating docs for namespace RDKit::MMFF::Tools Generating docs for compound RDKit::MMFF::Tools::DefaultTorsionBondSmarts... Generating docs for namespace RDKit::MMPA Generating docs for namespace RDKit::MMPA::detail Generating docs for namespace RDKit::MolAlign Generating docs for compound RDKit::MolAlign::MolAlignException... Generating docs for compound RDKit::MolAlign::BestAlignmentParams... Generating docs for compound RDKit::MolAlign::O3AFuncData... Generating docs for compound RDKit::MolAlign::O3AConstraint... Generating docs for compound RDKit::MolAlign::O3AConstraintVect... Generating docs for compound RDKit::MolAlign::MolHistogram... Generating docs for compound RDKit::MolAlign::LAP... Generating docs for compound RDKit::MolAlign::SDM... Generating docs for compound RDKit::MolAlign::O3A... Generating docs for namespace RDKit::MolAlign::details Generating docs for namespace RDKit::MolDraw2D_detail Generating docs for compound RDKit::MolDraw2D_detail::AtomSymbol... Generating docs for compound RDKit::MolDraw2D_detail::DrawAnnotation... Generating docs for compound RDKit::MolDraw2D_detail::DrawMol... Generating docs for compound RDKit::MolDraw2D_detail::DrawMolMCH... Generating docs for compound RDKit::MolDraw2D_detail::DrawMolMCHCircleAndLine... Generating docs for compound RDKit::MolDraw2D_detail::LinePair... Generating docs for compound RDKit::MolDraw2D_detail::DrawMolMCHLasso... Generating docs for compound RDKit::MolDraw2D_detail::DrawShape... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeArrow... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeEllipse... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeSimpleLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapePolyLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeSolidWedge... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeDashedWedge... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeWavyLine... Generating docs for compound RDKit::MolDraw2D_detail::DrawShapeArc... Generating docs for compound RDKit::MolDraw2D_detail::DrawText... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextCairo... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFT... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFTCairo... /build/reproducible-path/rdkit-202603.2/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-202603.2/Code/GraphMol/MolInterchange/MolInterchange.h:80: 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-202603.2/Code/GraphMol/MolInterchange/MolInterchange.h:89: warning: The following parameter of RDKit::MolInterchange::MolToJSONData(const T &mol, const JSONWriteParameters ¶ms=defaultJSONWriteParameters) is not documented: parameter 'params' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolOps.h:354: 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-202603.2/Code/GraphMol/MolOps.h:1361: warning: argument 'addAsQueries' of command @param is not found in the argument list of RDKit::MolOps::details::addExplicitAttachmentPoint(RWMol &mol, unsigned int atomIdx, unsigned int val, bool addAsQuery=true, bool addCoords=true) /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolOps.h:1361: warning: The following parameter of RDKit::MolOps::details::addExplicitAttachmentPoint(RWMol &mol, unsigned int atomIdx, unsigned int val, bool addAsQuery=true, bool addCoords=true) is not documented: parameter 'addAsQuery' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolOps.h:1378: warning: argument 'mol' of command @param is not found in the argument list of RDKit::MolOps::details::isAttachmentPoint(const Atom *atom, bool markedOnly=true) /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolOps.h:1378: warning: The following parameter of RDKit::MolOps::details::isAttachmentPoint(const Atom *atom, bool markedOnly=true) is not documented: parameter 'atom' Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFTJS... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFTSVG... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextJS... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextNotFT... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextSVG... Generating docs for compound RDKit::MolDraw2D_detail::SGroupDataLabel... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextFTQt... Generating docs for compound RDKit::MolDraw2D_detail::DrawTextQt... Generating docs for compound RDKit::MolDraw2D_detail::StringRect... Generating docs for namespace RDKit::MolDraw2DUtils Generating docs for compound RDKit::MolDraw2DUtils::ContourParams... Generating docs for namespace RDKit::MolEnumerator Generating docs for compound RDKit::MolEnumerator::LinkNode... Generating docs for compound RDKit::MolEnumerator::MolEnumeratorOp... Generating docs for compound RDKit::MolEnumerator::PositionVariationOp... Generating docs for compound RDKit::MolEnumerator::LinkNodeOp... Generating docs for compound RDKit::MolEnumerator::RepeatUnitOp... Generating docs for compound RDKit::MolEnumerator::MolEnumeratorParams... Generating docs for namespace RDKit::MolEnumerator::detail Generating docs for namespace RDKit::MolEnumerator::utils Generating docs for namespace RDKit::MolFragmenter Generating docs for compound RDKit::MolFragmenter::FragmenterBondType... Generating docs for namespace RDKit::MolHash Generating docs for namespace RDKit::MolInterchange Generating docs for compound RDKit::MolInterchange::JSONParseParameters... Generating docs for compound RDKit::MolInterchange::JSONWriteParameters... Generating docs for namespace RDKit::MolOps Generating docs for compound RDKit::MolOps::AddHsParameters... Generating docs for compound RDKit::MolOps::RemoveHsParameters... Generating docs for compound RDKit::MolOps::AdjustQueryParameters... Generating docs for compound RDKit::MolOps::Hybridizations... Generating docs for namespace RDKit::MolOps::details Generating docs for namespace RDKit::MolProcessing Generating docs for namespace RDKit::MolProcessing::details Generating docs for namespace RDKit::MolShapes Generating docs for namespace RDKit::MolStandardize Generating docs for compound RDKit::MolStandardize::AcidBaseCatalogEntry... Generating docs for compound RDKit::MolStandardize::AcidBaseCatalogParams... Generating docs for compound RDKit::MolStandardize::ChargeCorrection... Generating docs for compound RDKit::MolStandardize::Reionizer... Generating docs for compound RDKit::MolStandardize::Uncharger... Generating docs for compound RDKit::MolStandardize::FragmentRemover... Generating docs for compound RDKit::MolStandardize::LargestFragmentChooser... Generating docs for nested compound RDKit::MolStandardize::LargestFragmentChooser::Largest... Generating docs for compound RDKit::MolStandardize::FragmentCatalogEntry... Generating docs for compound RDKit::MolStandardize::FragmentCatalogParams... Generating docs for compound RDKit::MolStandardize::MetalDisconnectorOptions... Generating docs for compound RDKit::MolStandardize::MetalDisconnector... Generating docs for compound RDKit::MolStandardize::CleanupParameters... Generating docs for compound RDKit::MolStandardize::Normalizer... Generating docs for compound RDKit::MolStandardize::PipelineOptions... Generating docs for compound RDKit::MolStandardize::PipelineLogEntry... Generating docs for compound RDKit::MolStandardize::PipelineResult... Generating docs for compound RDKit::MolStandardize::Pipeline... Generating docs for compound RDKit::MolStandardize::Tautomer... Generating docs for compound RDKit::MolStandardize::TautomerEnumeratorResult... Generating docs for nested compound RDKit::MolStandardize::TautomerEnumeratorResult::const_iterator... Generating docs for compound RDKit::MolStandardize::TautomerEnumeratorCallback... Generating docs for compound RDKit::MolStandardize::TautomerEnumerator... Generating docs for compound RDKit::MolStandardize::TautomerCatalogEntry... Generating docs for compound /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MorganGenerator.h:223: warning: argument countSimulation from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MorganGenerator.h:223: warning: argument includeChirality from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MorganGenerator.h:223: warning: argument onlyNonzeroInvariants from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MorganGenerator.h:288: warning: argument countSimulation from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MorganGenerator.h:288: warning: argument includeChirality from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MorganGenerator.h:288: warning: argument onlyNonzeroInvariants from the argument list of RDKit::MorganFingerprint::getMorganGenerator has multiple @param documentation sections /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/MorganGenerator.h:187: warning: The following parameter of RDKit::MorganFingerprint::MorganAtomEnv::MorganAtomEnv(const std::uint32_t code, const unsigned int atomId, const unsigned int layer, const ROMol *mol) is not documented: parameter 'mol' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/FingerprintGenerator.h:136: 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-202603.2/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-202603.2/Code/GraphMol/Fingerprints/FingerprintGenerator.h:136: 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-202603.2/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-202603.2/Code/GraphMol/ChemReactions/SanitizeRxn.h:129: warning: argument 'operationThatFailed' of command @param is not found in the argument list of RDKit::RxnOps::sanitizeRxn(ChemicalReaction &rxn, unsigned int &operationsThatFailed, unsigned int sanitizeOps=SANITIZE_ALL, const MolOps::AdjustQueryParameters ¶ms=DefaultRxnAdjustParams()) /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/SanitizeRxn.h:129: warning: The following parameters of RDKit::RxnOps::sanitizeRxn(ChemicalReaction &rxn, unsigned int &operationsThatFailed, unsigned int sanitizeOps=SANITIZE_ALL, const MolOps::AdjustQueryParameters ¶ms=DefaultRxnAdjustParams()) are not documented: parameter 'operationsThatFailed' parameter 'params' RDKit::MolStandardize::TautomerTransform... Generating docs for compound RDKit::MolStandardize::TautomerCatalogParams... Generating docs for compound RDKit::MolStandardize::TransformCatalogEntry... Generating docs for compound RDKit::MolStandardize::TransformCatalogParams... Generating docs for compound RDKit::MolStandardize::ValidationMethod... Generating docs for compound RDKit::MolStandardize::CompositeValidation... Generating docs for compound RDKit::MolStandardize::RDKitValidation... Generating docs for compound RDKit::MolStandardize::NoAtomValidation... Generating docs for compound RDKit::MolStandardize::FragmentValidation... Generating docs for compound RDKit::MolStandardize::NeutralValidation... Generating docs for compound RDKit::MolStandardize::IsotopeValidation... Generating docs for compound RDKit::MolStandardize::MolVSValidation... Generating docs for compound RDKit::MolStandardize::AllowedAtomsValidation... Generating docs for compound RDKit::MolStandardize::DisallowedAtomsValidation... Generating docs for compound RDKit::MolStandardize::DisallowedRadicalValidation... Generating docs for compound RDKit::MolStandardize::FeaturesValidation... Generating docs for compound RDKit::MolStandardize::Is2DValidation... Generating docs for compound RDKit::MolStandardize::Layout2DValidation... Generating docs for compound RDKit::MolStandardize::StereoValidation... Generating docs for namespace RDKit::MolStandardize::defaults Generating docs for namespace RDKit::MolStandardize::Operations Generating docs for namespace RDKit::MolStandardize::TautomerScoringFunctions Generating docs for compound RDKit::MolStandardize::TautomerScoringFunctions::SubstructTerm... Generating docs for namespace RDKit::MorganFingerprint Generating docs for compound RDKit::MorganFingerprint::MorganAtomInvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganFeatureAtomInvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganBondInvGenerator... Generating docs for compound RDKit::MorganFingerprint::MorganArguments... Generating docs for compound RDKit::MorganFingerprint::MorganAtomEnv< OutputType >... Generating docs for compound RDKit::MorganFingerprint::MorganEnvGenerator< OutputType >... Generating docs for namespace RDKit::MorganFingerprints Generating docs for compound RDKit::MorganFingerprints::ss_matcher... Generating docs for namespace RDKit::PicklerOps Generating docs for namespace RDKit::PNGData Generating docs for namespace RDKit::QueryOps Generating docs for namespace RDKit::RascalMCES Generating docs for compound RDKit::RascalMCES::PartitionSet... Generating docs for compound RDKit::RascalMCES::RascalClusterOptions... Generating docs for compound RDKit::RascalMCES::RascalOptions... Generating docs for compound RDKit::RascalMCES::RascalResult... Generating docs for namespace RDKit::RascalMCES::details Generating docs for compound RDKit::RascalMCES::details::ClusNode... Generating docs for namespace RDKit::RDKitFP Generating docs for compound RDKit::RDKitFP::RDKitFPArguments... Generating docs for compound RDKit::RDKitFP::RDKitFPAtomInvGenerator... Generating docs for compound RDKit::RDKitFP::RDKitFPAtomEnv< OutputType >... Generating docs for compound RDKit::RDKitFP::RDKitFPEnvGenerator< OutputType >... Generating docs for namespace RDKit::RDKitFPUtils Generating docs for namespace RDKit::RDTypeTag Generating docs for namespace RDKit::RDTypeTag::detail Generating docs for compound RDKit::RDTypeTag::detail::Value... Generating docs for namespace RDKit::ReactionRunnerUtils Generating docs for namespace RDKit::ReducedGraphs Generating docs for namespace RDKit::RxnOps Generating docs for namespace RDKit::ScaffoldNetwork Generating docs for compound RDKit::ScaffoldNetwork::ScaffoldNetworkParams... Generating docs for compound RDKit::ScaffoldNetwork::NetworkEdge... Generating docs for compound RDKit::ScaffoldNetwork::ScaffoldNetwork... Generating docs for namespace RDKit::ScaffoldNetwork::detail Generating docs for namespace RDKit::SGroupParsing Generating docs for namespace RDKit::SGroupWriting Gener/build/reproducible-path/rdkit-202603.2/Code/GraphMol/SmilesParse/SmilesWrite.h:98: warning: argument 'bondIn' of command @param is not found in the argument list of RDKit::SmilesWrite::GetAtomSmiles(const Atom *atom, bool doKekule=false, const Bond *=nullptr, bool allHsExplicit=false, bool isomericSmiles=true) /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.h:305: warning: The following parameter of RDKit::SynthonSpaceSearch::SynthonSpace::readTextFile(const std::string &inFilename, bool &cancelled) is not documented: parameter 'cancelled' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.h:216: 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-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.h:199: warning: The following parameter of RDKit::SynthonSpaceSearch::SynthonSpace::substructureSearch(const ROMol &query, const SearchResultCallback &callback, const SubstructMatchParameters &matchParams=SubstructMatchParameters(), const SynthonSpaceSearchParams ¶ms=SynthonSpaceSearchParams()) is not documented: parameter 'matchParams' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/SynthonSpace.h:185: 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-202603.2/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:99: 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-202603.2/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:99: 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-202603.2/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:34: 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-202603.2/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:34: 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-202603.2/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.h:70: warning: The following parameter of RDKit::TopologicalTorsion::TopologicalTorsionAtomEnv::TopologicalTorsionAtomEnv(OutputType bitId, INT_VECT atomPath) is not documented: parameter 'atomPath' /build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/FingerprintGenerator.h:136: 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-202603.2/Code/GraphMol/FileParsers/CDXMLParser.h:123: 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-202603.2/Code/GraphMol/FileParsers/CDXMLParser.h:123: 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-202603.2/Code/GraphMol/FileParsers/FileParsers.h:120: warning: argument line from the argument list of RDKit::v1::MolDataStreamToMol has multiple @param documentation sections /build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/CDXMLParser.h:65: 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-202603.2/Code/GraphMol/FileParsers/CDXMLParser.h:65: 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' ating docs for namespace RDKit::SLNParse Generating docs for compound RDKit::SLNParse::AttribType... Generating docs for namespace RDKit::SmartsWrite Generating docs for namespace RDKit::SmilesParse Generating docs for compound RDKit::SmilesParse::SmilesParseException... Generating docs for namespace RDKit::SmilesWrite Generating docs for namespace RDKit::SmilesWrite::detail Generating docs for namespace RDKit::StructureCheck Generating docs for compound RDKit::StructureCheck::ChargeFix... Generating docs for compound RDKit::StructureCheck::Ligand... Generating docs for compound RDKit::StructureCheck::AugmentedAtom... Generating docs for compound RDKit::StructureCheck::IncEntry... Generating docs for compound RDKit::StructureCheck::PathEntry... Generating docs for compound RDKit::StructureCheck::StructCheckerOptions... Generating docs for compound RDKit::StructureCheck::StructChecker... Generating docs for compound RDKit::StructureCheck::StructCheckTautomer... Generating docs for compound RDKit::StructureCheck::Neighbourhood... Generating docs for namespace RDKit::Subgraphs Generating docs for namespace RDKit::SubstanceGroupChecks Generating docs for namespace RDKit::SynthonSpaceSearch Generating docs for compound RDKit::SynthonSpaceSearch::SearchResults... Generating docs for compound RDKit::SynthonSpaceSearch::Synthon... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSet... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceSearchParams... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpace... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceFingerprintSearcher... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceHitSet... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceFPHitSet... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceRascalSearcher... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceSearcher... Generating docs for compound RDKit::SynthonSpaceSearch::SynthonSpaceSubstructureSearcher... Generating docs for namespace RDKit::SynthonSpaceSearch::details Generating docs for compound RDKit::SynthonSpaceSearch::details::MemoryMappedFileReader... Generating docs for compound RDKit::SynthonSpaceSearch::details::Stepper... Generating docs for namespace RDKit::TopologicalTorsion Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionArguments... Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionAtomEnv< OutputType >... Generating docs for compound RDKit::TopologicalTorsion::TopologicalTorsionEnvGenerator< OutputType >... Generating docs for namespace RDKit::UFF Generating docs for namespace RDKit::UFF::Tools Generating docs for compound RDKit::UFF::Tools::DefaultTorsionBondSmarts... Generating docs for namespace RDKit::Utils Generating docs for compound RDKit::Utils::LocaleSwitcher... Generating docs for namespace RDKit::Utils::detail Generating docs for namespace RDKit::v1 Generating docs for compound RDKit::v1::MolSupplier... Generating docs for compound RDKit::v1::ForwardSDMolSupplier... Generating docs for compound RDKit::v1::SDMolSupplier... Generating docs for compound RDKit::v1::SmilesMolSupplier... Generating docs for compound RDKit::v1::TDTMolSupplier... Generating docs for compound RDKit::v1::SmilesParserParams... Generating docs for compound RDKit::v1::SmartsParserParams... Generating docs for compound RDKit::v1::MolFileUnhandledFeatureException... Generating docs for compound RDKit::v1::PDBParserParams... Generating docs for compound RDKit::v1::SmilesParseException... Generating docs for namespace RDKit::v2 Generating docs for namespace RDKit::v2::CDXMLParser Generating docs for compound RDKit::v2::CDXMLParser::CDXMLParserParams... Generating docs for namespace RDKit::v2::FileParsers Generating docs for compound RDKit::v2::FileParsers::MolFileUnhandledFeatureException... Generating docs for compound RDKit::v2::FileParsers::MolFileParserParams... Generating docs for compound RDKit::v2::FileParsers::MolFromSCSRParams... Gen/build/reproducible-path/rdkit-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:175: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:175: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:175: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:175: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:262: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:262: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:262: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:262: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:262: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:262: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:354: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:354: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:354: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:354: 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-202603.2/Code/GraphMol/FileParsers/MolSupplier.h:354: warning: The following parameter of RDKit::v2::FileParsers::TDTMolSupplier::TDTMolSupplier(const std::string &fileName, const TDTMolSupplierParams ¶ms=TDTMolSupplierParams()) is not documented: parameter 'params' /build/reproducible-path/rdkit-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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-202603.2/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 erating docs for compound RDKit::v2::FileParsers::TPLParserParams... Generating docs for compound RDKit::v2::FileParsers::Mol2ParserParams... Generating docs for compound RDKit::v2::FileParsers::PDBParserParams... Generating docs for compound RDKit::v2::FileParsers::MolSupplier... Generating docs for compound RDKit::v2::FileParsers::ForwardSDMolSupplier... Generating docs for compound RDKit::v2::FileParsers::SDMolSupplier... Generating docs for compound RDKit::v2::FileParsers::SmilesMolSupplierParams... Generating docs for compound RDKit::v2::FileParsers::SmilesMolSupplier... Generating docs for compound RDKit::v2::FileParsers::TDTMolSupplierParams... Generating docs for compound RDKit::v2::FileParsers::TDTMolSupplier... Generating docs for namespace RDKit::v2::MarvinParser Generating docs for compound RDKit::v2::MarvinParser::MrvParserParams... Generating docs for namespace RDKit::v2::ReactionParser Generating docs for compound RDKit::v2::ReactionParser::ReactionSmartsParserParams... Generating docs for namespace RDKit::v2::SmilesParse Generating docs for compound RDKit::v2::SmilesParse::SmilesParserParams... Generating docs for compound RDKit::v2::SmilesParse::SmartsParserParams... Generating docs for compound RDKit::v2::SmilesParse::SmilesParseException... Generating docs for namespace RDLog Generating docs for compound RDLog::LogStateSetter... Generating docs for compound RDLog::CaptureLog... Generating docs for compound RDLog::CaptureErrorLog... Generating docs for namespace RDMIF Generating docs for compound RDMIF::Coulomb... Generating docs for compound RDMIF::CoulombDielectric... Generating docs for compound RDMIF::VdWaals... Generating docs for compound RDMIF::MMFFVdWaals... Generating docs for compound RDMIF::UFFVdWaals... Generating docs for compound RDMIF::HBond... Generating docs for compound RDMIF::Hydrophilic... Generating docs for namespace RDNumeric Generating docs for compound RDNumeric::Matrix< TYPE >... Generating docs for compound RDNumeric::SquareMatrix< TYPE >... Generating docs for compound RDNumeric::SymmMatrix< TYPE >... Generating docs for compound RDNumeric::Vector< TYPE >... Generating docs for namespace RDNumeric::Alignments Generating docs for namespace RDNumeric::EigenSolvers Generating docs for namespace RDPickers Generating docs for compound RDPickers::DistPicker... Generating docs for compound RDPickers::HierarchicalClusterPicker... Generating docs for compound RDPickers::LeaderPicker... Generating docs for compound RDPickers::LeaderPickerState< T >... Generating docs for compound RDPickers::MaxMinPicker... Generating docs for compound RDPickers::MaxMinPickInfo... Generating docs for namespace RingUtils Generating docs for namespace SmilesParseOps Generating docs for namespace SmilesParseOps::detail Generating graph info page... Generating directory documentation... Generating index page... Generating page index... Generating topic index... Generating module index... Generating module member index... Generating namespace index... Generating namespace member index... Generating concept index... Generating annotated compound index... Generating alphabetical compound index... Generating hierarchical class index... Generating member index... Generating file index... Generating file member index... Generating example index... finalizing index lists... writing tag file... Running plantuml with JAVA... type lookup cache used 17164/65536 hits=68672 misses=21826 symbol lookup cache used 32666/65536 hits=256026 misses=32666 finished... (cd /build/reproducible-path/rdkit-202603.2/Docs/Book; RDBASE=/build/reproducible-path/rdkit-202603.2 /usr/bin/make html) make[2]: Entering directory '/build/reproducible-path/rdkit-202603.2/Docs/Book' mkdir -p _build/html/cppapi cp -r /build/reproducible-path/rdkit-202603.2/Code/docs/* _build/html/cppapi cp -r C++Examples _build/html/ sphinx-build -b html -d _build/doctrees . _build/html Running Sphinx v9.1.0 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... [ 0%] BackwardsIncompatibleChanges reading sources... [ 1%] Cartridge reading sources... [ 1%] Cookbook reading sources... [ 1%] GettingStartedInC++ reading sources... [ 2%] GettingStartedInPython reading sources... [ 2%] GettingStartedWithContributing reading sources... [ 3%] Install reading sources... [ 3%] Overview reading sources... [ 3%] RDKit_Book reading sources... [ 4%] api-docs reading sources... [ 4%] data/README reading sources... [ 4%] index reading sources... [ 5%] source/rdkit reading sources... [ 5%] source/rdkit.Avalon reading sources... [ 6%] source/rdkit.Avalon.pyAvalonTools reading sources... [ 6%] source/rdkit.Chem reading sources... [ 6%] source/rdkit.Chem.AllChem reading sources... [ 7%] source/rdkit.Chem.AtomPairs reading sources... [ 7%] source/rdkit.Chem.AtomPairs.Pairs reading sources... [ 7%] source/rdkit.Chem.AtomPairs.Sheridan reading sources... [ 8%] source/rdkit.Chem.AtomPairs.Torsions reading sources... [ 8%] source/rdkit.Chem.AtomPairs.Utils reading sources... [ 9%] source/rdkit.Chem.BRICS reading sources... [ 9%] source/rdkit.Chem.BuildFragmentCatalog reading sources... [ 9%] source/rdkit.Chem.ChemUtils reading sources... [ 10%] source/rdkit.Chem.ChemUtils.AlignDepict reading sources... [ 10%] source/rdkit.Chem.ChemUtils.BulkTester reading sources... [ 10%] source/rdkit.Chem.ChemUtils.DescriptorUtilities reading sources... [ 11%] source/rdkit.Chem.ChemUtils.SDFToCSV reading sources... [ 11%] source/rdkit.Chem.ChemUtils.TemplateExpand reading sources... [ 12%] source/rdkit.Chem.ChemicalFeatures reading sources... [ 12%] source/rdkit.Chem.ChemicalForceFields reading sources... [ 12%] source/rdkit.Chem.Crippen reading sources... [ 13%] source/rdkit.Chem.Descriptors reading sources... [ 13%] source/rdkit.Chem.Descriptors3D reading sources... [ 13%] source/rdkit.Chem.Draw reading sources... [ 14%] source/rdkit.Chem.Draw.IPythonConsole reading sources... [ 14%] source/rdkit.Chem.Draw.MolDrawing reading sources... [ 15%] source/rdkit.Chem.Draw.SimilarityMaps reading sources... [ 15%] source/rdkit.Chem.Draw.rdMolDraw2D reading sources... [ 15%] source/rdkit.Chem.Draw.rdMolDraw2DQt reading sources... [ 16%] source/rdkit.Chem.EState reading sources... [ 16%] source/rdkit.Chem.EState.AtomTypes reading sources... [ 16%] source/rdkit.Chem.EState.EState reading sources... [ 17%] source/rdkit.Chem.EState.EState_VSA reading sources... [ 17%] source/rdkit.Chem.EState.Fingerprinter reading sources... [ 18%] source/rdkit.Chem.EnumerateHeterocycles reading sources... [ 18%] source/rdkit.Chem.EnumerateStereoisomers reading sources... [ 18%] source/rdkit.Chem.FastSDMolSupplier reading sources... [ 19%] source/rdkit.Chem.FeatFinderCLI reading sources... [ 19%] source/rdkit.Chem.FeatMaps reading sources... [ 19%] source/rdkit.Chem.FeatMaps.FeatMapParser reading sources... [ 20%] source/rdkit.Chem.FeatMaps.FeatMapPoint reading sources... [ 20%] source/rdkit.Chem.FeatMaps.FeatMapUtils reading sources... [ 21%] source/rdkit.Chem.FeatMaps.FeatMaps reading sources... [ 21%] source/rdkit.Chem.Features reading sources... [ 21%] source/rdkit.Chem.Features.FeatDirUtilsRD reading sources... [ 22%] source/rdkit.Chem.Features.ShowFeats reading sources... [ 22%] source/rdkit.Chem.FilterCatalog reading sources... [ 22%] source/rdkit.Chem.Fingerprints reading sources... [ 23%] source/rdkit.Chem.Fingerprints.ClusterMols reading sources... [ 23%] source/rdkit.Chem.Fingerprints.DbFpSupplier reading sources... [ 24%] source/rdkit.Chem.Fingerprints.FingerprintMols reading sources... [ 24%] source/rdkit.Chem.Fingerprints.MolSimilarity reading sources... [ 24%] source/rdkit.Chem.Fingerprints.SimilarityScreener reading sources... [ 25%] source/rdkit.Chem.Fraggle reading sources... [ 25%] source/rdkit.Chem.Fraggle.FraggleSim reading sources... [ 25%] source/rdkit.Chem.FragmentCatalog reading sources... [ 26%] source/rdkit.Chem.FragmentMatcher reading sources... [ 26%] source/rdkit.Chem.Fragments reading sources... [ 27%] source/rdkit.Chem.FunctionalGroups reading sources... [ 27%] source/rdkit.Chem.GraphDescriptors reading sources... [ 27%] source/rdkit.Chem.Graphs reading sources... [ 28%] source/rdkit.Chem.Lipinski reading sources... [ 28%] source/rdkit.Chem.MACCSkeys reading sources... [ 28%] source/rdkit.Chem.MolCatalog reading sources... [ 29%] source/rdkit.Chem.MolDb reading sources... [ 29%] source/rdkit.Chem.MolDb.FingerprintUtils reading sources... [ 30%] source/rdkit.Chem.MolDb.Loader reading sources... [ 30%] source/rdkit.Chem.MolDb.Loader_orig reading sources... [ 30%] source/rdkit.Chem.MolDb.Loader_sa reading sources... [ 31%] source/rdkit.Chem.MolKey reading sources... [ 31%] source/rdkit.Chem.MolKey.InchiInfo reading sources... [ 31%] source/rdkit.Chem.MolKey.MolKey reading sources... [ 32%] source/rdkit.Chem.MolStandardize reading sources... [ 32%] source/rdkit.Chem.MolStandardize.rdMolStandardize reading sources... [ 33%] source/rdkit.Chem.MolSurf reading sources... [ 33%] source/rdkit.Chem.PandasTools reading sources... [ 33%] source/rdkit.Chem.PeriodicTable reading sources... [ 34%] source/rdkit.Chem.Pharm2D reading sources... [ 34%] source/rdkit.Chem.Pharm2D.Generate reading sources... [ 34%] source/rdkit.Chem.Pharm2D.Gobbi_Pharm2D reading sources... [ 35%] source/rdkit.Chem.Pharm2D.Matcher reading sources... [ 35%] source/rdkit.Chem.Pharm2D.SigFactory reading sources... [ 36%] source/rdkit.Chem.Pharm2D.Utils reading sources... [ 36%] source/rdkit.Chem.Pharm3D reading sources... [ 36%] source/rdkit.Chem.Pharm3D.EmbedLib reading sources... [ 37%] source/rdkit.Chem.Pharm3D.ExcludedVolume reading sources... [ 37%] source/rdkit.Chem.Pharm3D.Pharmacophore reading sources... [ 37%] source/rdkit.Chem.PropertyMol reading sources... [ 38%] source/rdkit.Chem.PyMol reading sources... [ 38%] source/rdkit.Chem.QED reading sources... [ 39%] source/rdkit.Chem.Randomize reading sources... [ 39%] source/rdkit.Chem.Recap reading sources... [ 39%] source/rdkit.Chem.ReducedGraphs reading sources... [ 40%] source/rdkit.Chem.RegistrationHash reading sources... [ 40%] source/rdkit.Chem.SATIS reading sources... [ 40%] source/rdkit.Chem.SaltRemover reading sources... [ 41%] source/rdkit.Chem.Scaffolds reading sources... [ 41%] source/rdkit.Chem.Scaffolds.MurckoScaffold reading sources... [ 42%] source/rdkit.Chem.Scaffolds.rdScaffoldNetwork reading sources... [ 42%] source/rdkit.Chem.ShowMols reading sources... [ 42%] source/rdkit.Chem.SimpleEnum reading sources... [ 43%] source/rdkit.Chem.SimpleEnum.Enumerator reading sources... [ 43%] source/rdkit.Chem.SpacialScore reading sources... [ 43%] source/rdkit.Chem.Subshape reading sources... [ 44%] source/rdkit.Chem.Subshape.BuilderUtils reading sources... [ 44%] source/rdkit.Chem.Subshape.SubshapeAligner reading sources... [ 45%] source/rdkit.Chem.Subshape.SubshapeBuilder reading sources... [ 45%] source/rdkit.Chem.Subshape.SubshapeObjects reading sources... [ 45%] source/rdkit.Chem.Suppliers reading sources... [ 46%] source/rdkit.Chem.Suppliers.DbMolSupplier reading sources... [ 46%] source/rdkit.Chem.Suppliers.MolSupplier reading sources... [ 46%] source/rdkit.Chem.TemplateAlign reading sources... [ 47%] source/rdkit.Chem.TorsionFingerprints reading sources... [ 47%] source/rdkit.Chem.fmcs reading sources... [ 48%] source/rdkit.Chem.fmcs.fmcs reading sources... [ 48%] source/rdkit.Chem.inchi reading sources... [ 48%] source/rdkit.Chem.rdAbbreviations reading sources... [ 49%] source/rdkit.Chem.rdCIPLabeler reading sources... [ 49%] source/rdkit.Chem.rdChemReactions reading sources... [ 49%] source/rdkit.Chem.rdChemicalFeatures reading sources... [ 50%] source/rdkit.Chem.rdCoordGen reading sources... [ 50%] source/rdkit.Chem.rdDepictor reading sources... [ 51%] source/rdkit.Chem.rdDeprotect reading sources... [ 51%] source/rdkit.Chem.rdDetermineBonds reading sources... [ 51%] source/rdkit.Chem.rdDistGeom reading sources... [ 52%] source/rdkit.Chem.rdEHTTools reading sources... [ 52%] source/rdkit.Chem.rdEnumerateStereoisomers reading sources... [ 52%] source/rdkit.Chem.rdFMCS reading sources... [ 53%] source/rdkit.Chem.rdFingerprintGenerator reading sources... [ 53%] source/rdkit.Chem.rdForceFieldHelpers reading sources... [ 54%] source/rdkit.Chem.rdFreeSASA reading sources... [ 54%] source/rdkit.Chem.rdGeneralizedSubstruct reading sources... [ 54%] source/rdkit.Chem.rdMHFPFingerprint reading sources... [ 55%] source/rdkit.Chem.rdMIF reading sources... [ 55%] source/rdkit.Chem.rdMMPA reading sources... [ 55%] source/rdkit.Chem.rdMolAlign reading sources... [ 56%] source/rdkit.Chem.rdMolCatalog reading sources... [ 56%] source/rdkit.Chem.rdMolChemicalFeatures reading sources... [ 57%] source/rdkit.Chem.rdMolDescriptors reading sources... [ 57%] source/rdkit.Chem.rdMolEnumerator reading sources... [ 57%] source/rdkit.Chem.rdMolHash reading sources... [ 58%] source/rdkit.Chem.rdMolInterchange reading sources... [ 58%] source/rdkit.Chem.rdMolProcessing reading sources... [ 58%] source/rdkit.Chem.rdMolTransforms reading sources... [ 59%] source/rdkit.Chem.rdPartialCharges reading sources... [ 59%] source/rdkit.Chem.rdRGroupDecomposition reading sources... [ 60%] source/rdkit.Chem.rdRascalMCES reading sources... [ 60%] source/rdkit.Chem.rdReducedGraphs reading sources... [ 60%] source/rdkit.Chem.rdSLNParse reading sources... [ 61%] source/rdkit.Chem.rdShapeAlign reading sources... [ 61%] source/rdkit.Chem.rdShapeHelpers reading sources... [ 61%] source/rdkit.Chem.rdSubstructLibrary reading sources... [ 62%] source/rdkit.Chem.rdSynthonSpaceSearch reading sources... [ 62%] source/rdkit.Chem.rdTautomerQuery reading sources... [ 63%] source/rdkit.Chem.rdchem reading sources... [ 63%] source/rdkit.Chem.rdfiltercatalog reading sources... [ 63%] source/rdkit.Chem.rdfragcatalog reading sources... [ 64%] source/rdkit.Chem.rdinchi reading sources... [ 64%] source/rdkit.Chem.rdmolfiles reading sources... [ 64%] source/rdkit.Chem.rdmolops reading sources... [ 65%] source/rdkit.Chem.rdqueries reading sources... [ 65%] source/rdkit.Chem.rdtrajectory reading sources... [ 66%] source/rdkit.DataManip reading sources... [ 66%] source/rdkit.DataManip.Metric reading sources... [ 66%] source/rdkit.DataManip.Metric.rdMetricMatrixCalc reading sources... [ 67%] source/rdkit.DataStructs reading sources... [ 67%] source/rdkit.DataStructs.BitEnsemble reading sources... [ 67%] source/rdkit.DataStructs.BitEnsembleDb reading sources... [ 68%] source/rdkit.DataStructs.BitUtils reading sources... [ 68%] source/rdkit.DataStructs.LazySignature reading sources... [ 69%] source/rdkit.DataStructs.TopNContainer reading sources... [ 69%] source/rdkit.DataStructs.VectCollection reading sources... [ 69%] source/rdkit.DataStructs.cDataStructs reading sources... [ 70%] source/rdkit.Dbase reading sources... [ 70%] source/rdkit.Dbase.DbConnection reading sources... [ 70%] source/rdkit.Dbase.DbInfo reading sources... [ 71%] source/rdkit.Dbase.DbModule reading sources... [ 71%] source/rdkit.Dbase.DbResultSet reading sources... [ 72%] source/rdkit.Dbase.DbUtils reading sources... [ 72%] source/rdkit.Dbase.StorageUtils reading sources... [ 72%] source/rdkit.DistanceGeometry reading sources... [ 73%] source/rdkit.DistanceGeometry.DistGeom reading sources... [ 73%] source/rdkit.ForceField reading sources... [ 73%] source/rdkit.ForceField.rdForceField reading sources... [ 74%] source/rdkit.Geometry reading sources... [ 74%] source/rdkit.Geometry.rdGeometry reading sources... [ 75%] source/rdkit.ML reading sources... [ 75%] source/rdkit.ML.Cluster reading sources... [ 75%] source/rdkit.ML.Cluster.Butina reading sources... [ 76%] source/rdkit.ML.Cluster.ClusterUtils reading sources... [ 76%] source/rdkit.ML.Cluster.ClusterVis reading sources... [ 76%] source/rdkit.ML.Cluster.Clustering reading sources... [ 77%] source/rdkit.ML.Cluster.Clusters reading sources... [ 77%] source/rdkit.ML.Cluster.Murtagh reading sources... [ 78%] source/rdkit.ML.Cluster.Resemblance reading sources... [ 78%] source/rdkit.ML.Cluster.Standardize reading sources... [ 78%] source/rdkit.ML.Data reading sources... [ 79%] source/rdkit.ML.Data.DataUtils reading sources... [ 79%] source/rdkit.ML.Data.FindQuantBounds reading sources... [ 79%] source/rdkit.ML.Data.MLData reading sources... [ 80%] source/rdkit.ML.Data.Quantize reading sources... [ 80%] source/rdkit.ML.Data.SplitData reading sources... [ 81%] source/rdkit.ML.Data.Stats reading sources... [ 81%] source/rdkit.ML.Data.Transforms reading sources... [ 81%] source/rdkit.ML.Data.cQuantize reading sources... [ 82%] source/rdkit.ML.Descriptors reading sources... [ 82%] source/rdkit.ML.Descriptors.CompoundDescriptors reading sources... [ 82%] source/rdkit.ML.Descriptors.Descriptors reading sources... [ 83%] source/rdkit.ML.Descriptors.MoleculeDescriptors reading sources... [ 83%] source/rdkit.ML.Descriptors.Parser reading sources... [ 84%] source/rdkit.ML.InfoTheory reading sources... [ 84%] source/rdkit.ML.InfoTheory.BitClusterer reading sources... [ 84%] source/rdkit.ML.InfoTheory.BitRank reading sources... [ 85%] source/rdkit.ML.InfoTheory.entropy reading sources... [ 85%] source/rdkit.ML.InfoTheory.rdInfoTheory reading sources... [ 85%] source/rdkit.ML.MLUtils reading sources... [ 86%] source/rdkit.ML.MLUtils.VoteImg reading sources... [ 86%] source/rdkit.ML.MatOps reading sources... [ 87%] source/rdkit.ML.SLT reading sources... [ 87%] source/rdkit.ML.SLT.Risk reading sources... [ 87%] source/rdkit.ML.Scoring reading sources... [ 88%] source/rdkit.ML.Scoring.Scoring reading sources... [ 88%] source/rdkit.ML.files reading sources... [ 88%] source/rdkit.Numerics reading sources... [ 89%] source/rdkit.Numerics.rdAlignment reading sources... [ 89%] source/rdkit.RDConfig reading sources... [ 90%] source/rdkit.RDLogger reading sources... [ 90%] source/rdkit.RDPaths reading sources... [ 90%] source/rdkit.RDRandom reading sources... [ 91%] source/rdkit.SimDivFilters reading sources... [ 91%] source/rdkit.SimDivFilters.SimilarityPickers reading sources... [ 91%] source/rdkit.SimDivFilters.rdSimDivPickers reading sources... [ 92%] source/rdkit.TestRunner reading sources... [ 92%] source/rdkit.VLib reading sources... [ 93%] source/rdkit.VLib.Filter reading sources... [ 93%] source/rdkit.VLib.Node reading sources... [ 93%] source/rdkit.VLib.NodeLib reading sources... [ 94%] source/rdkit.VLib.NodeLib.DbMolSupply reading sources... [ 94%] source/rdkit.VLib.NodeLib.DbPickleSupplier reading sources... [ 94%] source/rdkit.VLib.NodeLib.SDSupply reading sources... [ 95%] source/rdkit.VLib.NodeLib.SmartsMolFilter reading sources... [ 95%] source/rdkit.VLib.NodeLib.SmartsRemover reading sources... [ 96%] source/rdkit.VLib.NodeLib.SmilesDupeFilter reading sources... [ 96%] source/rdkit.VLib.NodeLib.SmilesOutput reading sources... [ 96%] source/rdkit.VLib.NodeLib.SmilesSupply reading sources... [ 97%] source/rdkit.VLib.Output reading sources... [ 97%] source/rdkit.VLib.Supply reading sources... [ 97%] source/rdkit.VLib.Transform reading sources... [ 98%] source/rdkit.rdBase reading sources... [ 98%] source/rdkit.utils reading sources... [ 99%] source/rdkit.utils.cactvs reading sources... [ 99%] source/rdkit.utils.chemutils reading sources... [ 99%] source/rdkit.utils.fileutils reading sources... [100%] source/rdkit.utils.listutils reading sources... [100%] source/rdkit.utils.spiral /build/reproducible-path/rdkit-202603.2/Docs/Book/BackwardsIncompatibleChanges.md:49: WARNING: duplicate label changes to canonicalization, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/BackwardsIncompatibleChanges.md [autosectionlabel.BackwardsIncompatibleChanges] /build/reproducible-path/rdkit-202603.2/Docs/Book/Cartridge.md:732: WARNING: duplicate label license, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/BackwardsIncompatibleChanges.md [autosectionlabel.Cartridge] /build/reproducible-path/rdkit-202603.2/Docs/Book/Cookbook.rst:7: WARNING: duplicate label introduction, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/Cartridge.md [autosectionlabel.Cookbook] /build/reproducible-path/rdkit-202603.2/Docs/Book/Cookbook.rst:10: WARNING: duplicate label what is this?, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/Cartridge.md [autosectionlabel.Cookbook] /build/reproducible-path/rdkit-202603.2/Docs/Book/Cookbook.rst:2581: WARNING: duplicate label license, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/Cartridge.md [autosectionlabel.Cookbook] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md:3: WARNING: duplicate label what is this?, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/Cookbook.rst [autosectionlabel.GettingStartedInC++] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md:305: WARNING: duplicate label writing molecules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/Cookbook.rst [autosectionlabel.GettingStartedInC++] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:1721: WARNING: image file not readable: images/rascal_1.png [image.not_readable] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:1726: WARNING: image file not readable: images/rascal_2.png [image.not_readable] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:1731: WARNING: image file not readable: images/rascal_3.png [image.not_readable] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:12: WARNING: duplicate label what is this?, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:30: WARNING: duplicate label reading single molecules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:104: WARNING: duplicate label reading sets of molecules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:208: WARNING: duplicate label writing molecules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:393: WARNING: duplicate label writing sets of molecules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:434: WARNING: duplicate label working with molecules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:438: WARNING: duplicate label looping over atoms and bonds, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:481: WARNING: duplicate label ring information, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:550: WARNING: duplicate label modifying molecules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:618: WARNING: duplicate label working with 2d molecules: generating depictions, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:668: WARNING: duplicate label working with 3d molecules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:794: WARNING: duplicate label preserving molecules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:850: WARNING: duplicate label drawing molecules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:1089: WARNING: duplicate label substructure searching, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:1154: WARNING: duplicate label stereochemistry in substructure matches, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:1192: WARNING: duplicate label atom map indices in smarts, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:3362: WARNING: duplicate label substructure searching, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:3660: WARNING: duplicate label the sssr problem, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInC++.md [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst:4074: WARNING: duplicate label license, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/Cookbook.rst [autosectionlabel.GettingStartedInPython] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedWithContributing.md:437: WARNING: duplicate label building rdkit for development, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedWithContributing.md [autosectionlabel.GettingStartedWithContributing] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedWithContributing.md:443: WARNING: duplicate label where should i put my code?, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedWithContributing.md [autosectionlabel.GettingStartedWithContributing] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedWithContributing.md:447: WARNING: duplicate label coding standards, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedWithContributing.md [autosectionlabel.GettingStartedWithContributing] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedWithContributing.md:460: WARNING: duplicate label tests, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedWithContributing.md [autosectionlabel.GettingStartedWithContributing] /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedWithContributing.md:494: WARNING: duplicate label documentation, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedWithContributing.md [autosectionlabel.GettingStartedWithContributing] /build/reproducible-path/rdkit-202603.2/Docs/Book/Install.md:426: WARNING: duplicate label recommended extras, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/Install.md [autosectionlabel.Install] /build/reproducible-path/rdkit-202603.2/Docs/Book/Install.md:470: WARNING: duplicate label testing the build (optional, but recommended), other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/Install.md [autosectionlabel.Install] /build/reproducible-path/rdkit-202603.2/Docs/Book/Install.md:475: WARNING: duplicate label license, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst [autosectionlabel.Install] /build/reproducible-path/rdkit-202603.2/Docs/Book/Overview.md:106: WARNING: duplicate label license, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/Install.md [autosectionlabel.Overview] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:2835: WARNING: Title underline too short. Self-Contained Structure Representations (SCSR) for Macromolecules ******************* [docutils] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:2938: WARNING: Bullet list ends without a blank line; unexpected unindent. [docutils] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:2942: WARNING: Bullet list ends without a blank line; unexpected unindent. [docutils] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:2947: WARNING: Title underline too short. Hydrogen Bonds ------- [docutils] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:3025: ERROR: Error in "image" directive: no content permitted. .. image:: images/WobbleRna.png Full Example of SCSR files: [docutils] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:3028: WARNING: Explicit markup ends without a blank line; unexpected unindent. [docutils] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:179: WARNING: duplicate label aromaticity, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:388: WARNING: duplicate label dative bonds, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:703: WARNING: duplicate label stereochemistry, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/Cookbook.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:1432: WARNING: duplicate label chemical features, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:2634: WARNING: duplicate label introduction, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/Cookbook.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:2732: WARNING: duplicate label rdkit fingerprints, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedInPython.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:2844: WARNING: duplicate label representation, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst [autosectionlabel.RDKit_Book] /build/reproducible-path/rdkit-202603.2/Docs/Book/RDKit_Book.rst:3100: WARNING: duplicate label license, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/Overview.md [autosectionlabel.RDKit_Book] WARNING: autodoc: failed to import 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Avalon' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Avalon.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.rst [autosectionlabel.source/rdkit.Avalon] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Avalon.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.rst [autosectionlabel.source/rdkit.Avalon] WARNING: autodoc: failed to import 'Avalon.pyAvalonTools' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.rst:5: WARNING: duplicate label subpackages, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.rst [autosectionlabel.source/rdkit.Chem] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.rst:28: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Avalon.rst [autosectionlabel.source/rdkit.Chem] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.rst:120: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Avalon.rst [autosectionlabel.source/rdkit.Chem] WARNING: autodoc: failed to import 'Chem.AllChem' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.AtomPairs' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.AtomPairs.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.rst [autosectionlabel.source/rdkit.Chem.AtomPairs] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.AtomPairs.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.rst [autosectionlabel.source/rdkit.Chem.AtomPairs] WARNING: autodoc: failed to import 'Chem.AtomPairs.Pairs' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.AtomPairs.Sheridan' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.AtomPairs.Torsions' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.AtomPairs.Utils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.BRICS' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.BuildFragmentCatalog' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.ChemUtils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.ChemUtils.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.AtomPairs.rst [autosectionlabel.source/rdkit.Chem.ChemUtils] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.ChemUtils.rst:16: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.AtomPairs.rst [autosectionlabel.source/rdkit.Chem.ChemUtils] WARNING: autodoc: failed to import 'Chem.ChemUtils.AlignDepict' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.ChemUtils.BulkTester' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.ChemUtils.DescriptorUtilities' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.ChemUtils.SDFToCSV' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.ChemUtils.TemplateExpand' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.ChemicalFeatures' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.ChemicalForceFields' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Crippen' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Descriptors' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Descriptors3D' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Draw' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Draw.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.ChemUtils.rst [autosectionlabel.source/rdkit.Chem.Draw] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Draw.rst:16: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.ChemUtils.rst [autosectionlabel.source/rdkit.Chem.Draw] WARNING: autodoc: failed to import 'Chem.Draw.IPythonConsole' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Draw.MolDrawing' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Draw.SimilarityMaps' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Draw.rdMolDraw2D' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Draw.rdMolDraw2DQt' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.EState' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.EState.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Draw.rst [autosectionlabel.source/rdkit.Chem.EState] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.EState.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Draw.rst [autosectionlabel.source/rdkit.Chem.EState] WARNING: autodoc: failed to import 'Chem.EState.AtomTypes' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.EState.EState' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.EState.EState_VSA' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.EState.Fingerprinter' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.EnumerateHeterocycles' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.EnumerateStereoisomers' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.FastSDMolSupplier' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.FeatFinderCLI' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.FeatMaps' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.FeatMaps.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.EState.rst [autosectionlabel.source/rdkit.Chem.FeatMaps] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.FeatMaps.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.EState.rst [autosectionlabel.source/rdkit.Chem.FeatMaps] WARNING: autodoc: failed to import 'Chem.FeatMaps.FeatMapParser' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.FeatMaps.FeatMapPoint' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.FeatMaps.FeatMapUtils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.FeatMaps.FeatMaps' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Features' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Features.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.FeatMaps.rst [autosectionlabel.source/rdkit.Chem.Features] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Features.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.FeatMaps.rst [autosectionlabel.source/rdkit.Chem.Features] WARNING: autodoc: failed to import 'Chem.Features.FeatDirUtilsRD' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Features.ShowFeats' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.FilterCatalog' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Fingerprints' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Fingerprints.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Features.rst [autosectionlabel.source/rdkit.Chem.Fingerprints] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Fingerprints.rst:16: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Features.rst [autosectionlabel.source/rdkit.Chem.Fingerprints] WARNING: autodoc: failed to import 'Chem.Fingerprints.ClusterMols' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Fingerprints.DbFpSupplier' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Fingerprints.FingerprintMols' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Fingerprints.MolSimilarity' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Fingerprints.SimilarityScreener' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Fraggle' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Fraggle.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Fingerprints.rst [autosectionlabel.source/rdkit.Chem.Fraggle] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Fraggle.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Fingerprints.rst [autosectionlabel.source/rdkit.Chem.Fraggle] WARNING: autodoc: failed to import 'Chem.Fraggle.FraggleSim' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.FragmentCatalog' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.FragmentMatcher' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Fragments' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.FunctionalGroups' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.GraphDescriptors' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Graphs' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Lipinski' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.MACCSkeys' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.MolCatalog' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.MolDb' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.MolDb.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Fraggle.rst [autosectionlabel.source/rdkit.Chem.MolDb] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.MolDb.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Fraggle.rst [autosectionlabel.source/rdkit.Chem.MolDb] WARNING: autodoc: failed to import 'Chem.MolDb.FingerprintUtils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.MolDb.Loader' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.MolDb.Loader_orig' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.MolDb.Loader_sa' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.MolKey' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.MolKey.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.MolDb.rst [autosectionlabel.source/rdkit.Chem.MolKey] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.MolKey.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.MolDb.rst [autosectionlabel.source/rdkit.Chem.MolKey] WARNING: autodoc: failed to import 'Chem.MolKey.InchiInfo' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.MolKey.MolKey' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.MolStandardize.rst:6: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.MolKey.rst [autosectionlabel.source/rdkit.Chem.MolStandardize] WARNING: autodoc: failed to import 'Chem.MolStandardize.rdMolStandardize' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.MolSurf' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.PandasTools' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.PeriodicTable' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Pharm2D' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Pharm2D.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.MolStandardize.rst [autosectionlabel.source/rdkit.Chem.Pharm2D] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Pharm2D.rst:16: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.MolKey.rst [autosectionlabel.source/rdkit.Chem.Pharm2D] WARNING: autodoc: failed to import 'Chem.Pharm2D.Generate' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Pharm2D.Gobbi_Pharm2D' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Pharm2D.Matcher' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Pharm2D.SigFactory' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Pharm2D.Utils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Pharm3D' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Pharm3D.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Pharm2D.rst [autosectionlabel.source/rdkit.Chem.Pharm3D] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Pharm3D.rst:14: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Pharm2D.rst [autosectionlabel.source/rdkit.Chem.Pharm3D] WARNING: autodoc: failed to import 'Chem.Pharm3D.EmbedLib' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Pharm3D.ExcludedVolume' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Pharm3D.Pharmacophore' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.PropertyMol' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.PyMol' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.QED' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Randomize' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Recap' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.ReducedGraphs' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.RegistrationHash' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.SATIS' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.SaltRemover' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Scaffolds' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Scaffolds.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Pharm3D.rst [autosectionlabel.source/rdkit.Chem.Scaffolds] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Scaffolds.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Pharm3D.rst [autosectionlabel.source/rdkit.Chem.Scaffolds] WARNING: autodoc: failed to import 'Chem.Scaffolds.MurckoScaffold' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Scaffolds.rdScaffoldNetwork' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.ShowMols' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.SimpleEnum' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.SimpleEnum.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Scaffolds.rst [autosectionlabel.source/rdkit.Chem.SimpleEnum] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.SimpleEnum.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Scaffolds.rst [autosectionlabel.source/rdkit.Chem.SimpleEnum] WARNING: autodoc: failed to import 'Chem.SimpleEnum.Enumerator' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.SpacialScore' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Subshape' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Subshape.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.SimpleEnum.rst [autosectionlabel.source/rdkit.Chem.Subshape] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Subshape.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.SimpleEnum.rst [autosectionlabel.source/rdkit.Chem.Subshape] WARNING: autodoc: failed to import 'Chem.Subshape.BuilderUtils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Subshape.SubshapeAligner' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Subshape.SubshapeBuilder' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Subshape.SubshapeObjects' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Suppliers' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Suppliers.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Subshape.rst [autosectionlabel.source/rdkit.Chem.Suppliers] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Suppliers.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Subshape.rst [autosectionlabel.source/rdkit.Chem.Suppliers] WARNING: autodoc: failed to import 'Chem.Suppliers.DbMolSupplier' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.Suppliers.MolSupplier' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.TemplateAlign' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.TorsionFingerprints' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.fmcs' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.fmcs.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Suppliers.rst [autosectionlabel.source/rdkit.Chem.fmcs] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.fmcs.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.Suppliers.rst [autosectionlabel.source/rdkit.Chem.fmcs] WARNING: autodoc: failed to import 'Chem.fmcs.fmcs' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.inchi' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdAbbreviations' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdCIPLabeler' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdChemReactions' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdChemicalFeatures' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdCoordGen' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdDepictor' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdDeprotect' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdDetermineBonds' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdDistGeom' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdEHTTools' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdEnumerateStereoisomers' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdFMCS' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdFingerprintGenerator' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdForceFieldHelpers' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdFreeSASA' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdGeneralizedSubstruct' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdMHFPFingerprint' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdMIF' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdMMPA' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdMolAlign' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdMolCatalog' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdMolChemicalFeatures' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdMolDescriptors' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdMolEnumerator' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdMolHash' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdMolInterchange' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdMolProcessing' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdMolTransforms' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdPartialCharges' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdRGroupDecomposition' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdRascalMCES' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdReducedGraphs' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdSLNParse' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdShapeAlign' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdShapeHelpers' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdSubstructLibrary' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdSynthonSpaceSearch' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdTautomerQuery' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdchem' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdfiltercatalog' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdfragcatalog' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdinchi' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdmolfiles' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdmolops' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdqueries' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Chem.rdtrajectory' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'DataManip' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DataManip.rst:5: WARNING: duplicate label subpackages, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.rst [autosectionlabel.source/rdkit.DataManip] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DataManip.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.fmcs.rst [autosectionlabel.source/rdkit.DataManip] WARNING: autodoc: failed to import 'DataManip.Metric' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DataManip.Metric.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Chem.fmcs.rst [autosectionlabel.source/rdkit.DataManip.Metric] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DataManip.Metric.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DataManip.rst [autosectionlabel.source/rdkit.DataManip.Metric] WARNING: autodoc: failed to import 'DataManip.Metric.rdMetricMatrixCalc' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'DataStructs' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DataStructs.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DataManip.Metric.rst [autosectionlabel.source/rdkit.DataStructs] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DataStructs.rst:18: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DataManip.Metric.rst [autosectionlabel.source/rdkit.DataStructs] WARNING: autodoc: failed to import 'DataStructs.BitEnsemble' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'DataStructs.BitEnsembleDb' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'DataStructs.BitUtils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'DataStructs.LazySignature' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'DataStructs.TopNContainer' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'DataStructs.VectCollection' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'DataStructs.cDataStructs' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Dbase' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Dbase.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DataStructs.rst [autosectionlabel.source/rdkit.Dbase] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Dbase.rst:17: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DataStructs.rst [autosectionlabel.source/rdkit.Dbase] WARNING: autodoc: failed to import 'Dbase.DbConnection' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Dbase.DbInfo' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Dbase.DbModule' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Dbase.DbResultSet' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Dbase.DbUtils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Dbase.StorageUtils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'DistanceGeometry' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DistanceGeometry.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Dbase.rst [autosectionlabel.source/rdkit.DistanceGeometry] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DistanceGeometry.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Dbase.rst [autosectionlabel.source/rdkit.DistanceGeometry] WARNING: autodoc: failed to import 'DistanceGeometry.DistGeom' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ForceField.rst:5: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils] WARNING: autodoc: failed to import 'ForceField' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ForceField.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DistanceGeometry.rst [autosectionlabel.source/rdkit.ForceField] WARNING: autodoc: failed to import 'ForceField.rdForceField' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Geometry' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Geometry.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DistanceGeometry.rst [autosectionlabel.source/rdkit.Geometry] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Geometry.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ForceField.rst [autosectionlabel.source/rdkit.Geometry] WARNING: autodoc: failed to import 'Geometry.rdGeometry' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.rst:5: WARNING: duplicate label subpackages, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.DataManip.rst [autosectionlabel.source/rdkit.ML] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.rst:18: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Geometry.rst [autosectionlabel.source/rdkit.ML] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.rst:26: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Geometry.rst [autosectionlabel.source/rdkit.ML] WARNING: autodoc: failed to import 'ML.Cluster' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Cluster.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.rst [autosectionlabel.source/rdkit.ML.Cluster] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Cluster.rst:19: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.rst [autosectionlabel.source/rdkit.ML.Cluster] WARNING: autodoc: failed to import 'ML.Cluster.Butina' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Cluster.ClusterUtils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Cluster.ClusterVis' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Cluster.Clustering' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Cluster.Clusters' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Cluster.Murtagh' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Cluster.Resemblance' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Cluster.Standardize' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Data' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Data.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Cluster.rst [autosectionlabel.source/rdkit.ML.Data] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Data.rst:19: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Cluster.rst [autosectionlabel.source/rdkit.ML.Data] WARNING: autodoc: failed to import 'ML.Data.DataUtils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Data.FindQuantBounds' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Data.MLData' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Data.Quantize' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Data.SplitData' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Data.Stats' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Data.Transforms' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Data.cQuantize' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Descriptors' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Descriptors.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Data.rst [autosectionlabel.source/rdkit.ML.Descriptors] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Descriptors.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Data.rst [autosectionlabel.source/rdkit.ML.Descriptors] WARNING: autodoc: failed to import 'ML.Descriptors.CompoundDescriptors' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Descriptors.Descriptors' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Descriptors.MoleculeDescriptors' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Descriptors.Parser' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.InfoTheory' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.InfoTheory.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Descriptors.rst [autosectionlabel.source/rdkit.ML.InfoTheory] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.InfoTheory.rst:15: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Descriptors.rst [autosectionlabel.source/rdkit.ML.InfoTheory] WARNING: autodoc: failed to import 'ML.InfoTheory.BitClusterer' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.InfoTheory.BitRank' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.InfoTheory.entropy' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.InfoTheory.rdInfoTheory' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.MLUtils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.MLUtils.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.InfoTheory.rst [autosectionlabel.source/rdkit.ML.MLUtils] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.MLUtils.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.InfoTheory.rst [autosectionlabel.source/rdkit.ML.MLUtils] WARNING: autodoc: failed to import 'ML.MLUtils.VoteImg' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.MatOps' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.SLT' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.SLT.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.MLUtils.rst [autosectionlabel.source/rdkit.ML.SLT] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.SLT.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.MLUtils.rst [autosectionlabel.source/rdkit.ML.SLT] WARNING: autodoc: failed to import 'ML.SLT.Risk' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.Scoring' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Scoring.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.SLT.rst [autosectionlabel.source/rdkit.ML.Scoring] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Scoring.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.SLT.rst [autosectionlabel.source/rdkit.ML.Scoring] WARNING: autodoc: failed to import 'ML.Scoring.Scoring' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'ML.files' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'Numerics' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Numerics.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Scoring.rst [autosectionlabel.source/rdkit.Numerics] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Numerics.rst:12: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.Scoring.rst [autosectionlabel.source/rdkit.Numerics] WARNING: autodoc: failed to import 'Numerics.rdAlignment' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'RDConfig' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'RDLogger' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'RDPaths' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'RDRandom' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'SimDivFilters' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.SimDivFilters.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Numerics.rst [autosectionlabel.source/rdkit.SimDivFilters] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.SimDivFilters.rst:13: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.Numerics.rst [autosectionlabel.source/rdkit.SimDivFilters] WARNING: autodoc: failed to import 'SimDivFilters.SimilarityPickers' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'SimDivFilters.rdSimDivPickers' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'TestRunner' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.VLib.rst:5: WARNING: duplicate label subpackages, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.ML.rst [autosectionlabel.source/rdkit.VLib] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.VLib.rst:12: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.SimDivFilters.rst [autosectionlabel.source/rdkit.VLib] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.VLib.rst:23: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.SimDivFilters.rst [autosectionlabel.source/rdkit.VLib] WARNING: autodoc: failed to import 'VLib.Filter' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib.Node' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib.NodeLib' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.VLib.NodeLib.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.VLib.rst [autosectionlabel.source/rdkit.VLib.NodeLib] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.VLib.NodeLib.rst:19: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.VLib.rst [autosectionlabel.source/rdkit.VLib.NodeLib] WARNING: autodoc: failed to import 'VLib.NodeLib.DbMolSupply' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib.NodeLib.DbPickleSupplier' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib.NodeLib.SDSupply' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib.NodeLib.SmartsMolFilter' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib.NodeLib.SmartsRemover' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib.NodeLib.SmilesDupeFilter' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib.NodeLib.SmilesOutput' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib.NodeLib.SmilesSupply' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib.Output' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib.Supply' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'VLib.Transform' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'rdBase' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'utils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.utils.rst:5: WARNING: duplicate label submodules, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.VLib.NodeLib.rst [autosectionlabel.source/rdkit.utils] /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.utils.rst:16: WARNING: duplicate label module contents, other instance in /build/reproducible-path/rdkit-202603.2/Docs/Book/source/rdkit.VLib.NodeLib.rst [autosectionlabel.source/rdkit.utils] WARNING: autodoc: failed to import 'utils.cactvs' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'utils.chemutils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'utils.fileutils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'utils.listutils' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] WARNING: autodoc: failed to import 'utils.spiral' from module 'rdkit'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 131, in _import_from_module_and_path module = _import_module(module_name, try_reload=True) File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/_dynamic/_importer.py", line 218, in _import_module raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ModuleNotFoundError: No module named 'rdkit' [autodoc.import_object] looking for now-outdated files... none found pickling environment... done checking consistency... /build/reproducible-path/rdkit-202603.2/Docs/Book/data/README.md: WARNING: document isn't included in any toctree [toc.not_included] done preparing documents... done copying assets... copying downloadable files... [ 5%] C++Examples/example1.cpp copying downloadable files... [ 11%] C++Examples/example2.cpp copying downloadable files... [ 16%] C++Examples/example3.cpp copying downloadable files... [ 21%] C++Examples/example4.cpp copying downloadable files... [ 26%] C++Examples/example5.cpp copying downloadable files... [ 32%] C++Examples/example6.cpp copying downloadable files... [ 37%] C++Examples/example7.cpp copying downloadable files... [ 42%] C++Examples/example8.cpp copying downloadable files... [ 47%] C++Examples/example9.cpp copying downloadable files... [ 53%] ../../Code/GraphMol/Bond.h copying downloadable files... [ 58%] C++Examples/example10.cpp copying downloadable files... [ 63%] C++Examples/CMakeLists.txt copying downloadable files... [ 68%] C++Examples/example11.cpp copying downloadable files... [ 74%] C++Examples/example12.cpp copying downloadable files... [ 79%] C++Examples/example13.cpp copying downloadable files... [ 84%] C++Examples/example17.cpp copying downloadable files... [ 89%] C++Examples/example14.cpp copying downloadable files... [ 95%] C++Examples/example15.cpp copying downloadable files... [100%] C++Examples/example16.cpp copying static files... Writing evaluated template result to /build/reproducible-path/rdkit-202603.2/Docs/Book/_build/html/_static/language_data.js Writing evaluated template result to /build/reproducible-path/rdkit-202603.2/Docs/Book/_build/html/_static/documentation_options.js Writing evaluated template result to /build/reproducible-path/rdkit-202603.2/Docs/Book/_build/html/_static/basic.css Writing evaluated template result to /build/reproducible-path/rdkit-202603.2/Docs/Book/_build/html/_static/sphinxdoc.css copying static files: done copying extra files... copying extra files: done copying assets: done writing output... [ 0%] BackwardsIncompatibleChanges writing output... [ 1%] Cartridge writing output... [ 1%] Cookbook writing output... [ 1%] GettingStartedInC++ writing output... [ 2%] GettingStartedInPython writing output... [ 2%] GettingStartedWithContributing writing output... [ 3%] Install writing output... [ 3%] Overview writing output... [ 3%] RDKit_Book writing output... [ 4%] api-docs writing output... [ 4%] data/README writing output... [ 4%] index writing output... [ 5%] source/rdkit writing output... [ 5%] source/rdkit.Avalon writing output... [ 6%] source/rdkit.Avalon.pyAvalonTools writing output... [ 6%] source/rdkit.Chem writing output... [ 6%] source/rdkit.Chem.AllChem writing output... [ 7%] source/rdkit.Chem.AtomPairs writing output... [ 7%] source/rdkit.Chem.AtomPairs.Pairs writing output... [ 7%] source/rdkit.Chem.AtomPairs.Sheridan writing output... [ 8%] source/rdkit.Chem.AtomPairs.Torsions writing output... [ 8%] source/rdkit.Chem.AtomPairs.Utils writing output... [ 9%] source/rdkit.Chem.BRICS writing output... [ 9%] source/rdkit.Chem.BuildFragmentCatalog writing output... [ 9%] source/rdkit.Chem.ChemUtils writing output... [ 10%] source/rdkit.Chem.ChemUtils.AlignDepict writing output... [ 10%] source/rdkit.Chem.ChemUtils.BulkTester writing output... [ 10%] source/rdkit.Chem.ChemUtils.DescriptorUtilities writing output... [ 11%] source/rdkit.Chem.ChemUtils.SDFToCSV writing output... [ 11%] source/rdkit.Chem.ChemUtils.TemplateExpand writing output... [ 12%] source/rdkit.Chem.ChemicalFeatures writing output... [ 12%] source/rdkit.Chem.ChemicalForceFields writing output... [ 12%] source/rdkit.Chem.Crippen writing output... [ 13%] source/rdkit.Chem.Descriptors writing output... [ 13%] source/rdkit.Chem.Descriptors3D writing output... [ 13%] source/rdkit.Chem.Draw writing output... [ 14%] source/rdkit.Chem.Draw.IPythonConsole writing output... [ 14%] source/rdkit.Chem.Draw.MolDrawing writing output... [ 15%] source/rdkit.Chem.Draw.SimilarityMaps writing output... [ 15%] source/rdkit.Chem.Draw.rdMolDraw2D writing output... [ 15%] source/rdkit.Chem.Draw.rdMolDraw2DQt writing output... [ 16%] source/rdkit.Chem.EState writing output... [ 16%] source/rdkit.Chem.EState.AtomTypes writing output... [ 16%] source/rdkit.Chem.EState.EState writing output... [ 17%] source/rdkit.Chem.EState.EState_VSA writing output... [ 17%] source/rdkit.Chem.EState.Fingerprinter writing output... [ 18%] source/rdkit.Chem.EnumerateHeterocycles writing output... [ 18%] source/rdkit.Chem.EnumerateStereoisomers writing output... [ 18%] source/rdkit.Chem.FastSDMolSupplier writing output... [ 19%] source/rdkit.Chem.FeatFinderCLI writing output... [ 19%] source/rdkit.Chem.FeatMaps writing output... [ 19%] source/rdkit.Chem.FeatMaps.FeatMapParser writing output... [ 20%] source/rdkit.Chem.FeatMaps.FeatMapPoint writing output... [ 20%] source/rdkit.Chem.FeatMaps.FeatMapUtils writing output... [ 21%] source/rdkit.Chem.FeatMaps.FeatMaps writing output... [ 21%] source/rdkit.Chem.Features writing output... [ 21%] source/rdkit.Chem.Features.FeatDirUtilsRD writing output... [ 22%] source/rdkit.Chem.Features.ShowFeats writing output... [ 22%] source/rdkit.Chem.FilterCatalog writing output... [ 22%] source/rdkit.Chem.Fingerprints writing output... [ 23%] source/rdkit.Chem.Fingerprints.ClusterMols writing output... [ 23%] source/rdkit.Chem.Fingerprints.DbFpSupplier writing output... [ 24%] source/rdkit.Chem.Fingerprints.FingerprintMols writing output... [ 24%] source/rdkit.Chem.Fingerprints.MolSimilarity writing output... [ 24%] source/rdkit.Chem.Fingerprints.SimilarityScreener writing output... [ 25%] source/rdkit.Chem.Fraggle writing output... [ 25%] source/rdkit.Chem.Fraggle.FraggleSim writing output... [ 25%] source/rdkit.Chem.FragmentCatalog writing output... [ 26%] source/rdkit.Chem.FragmentMatcher writing output... [ 26%] source/rdkit.Chem.Fragments writing output... [ 27%] source/rdkit.Chem.FunctionalGroups writing output... [ 27%] source/rdkit.Chem.GraphDescriptors writing output... [ 27%] source/rdkit.Chem.Graphs writing output... [ 28%] source/rdkit.Chem.Lipinski writing output... [ 28%] source/rdkit.Chem.MACCSkeys writing output... [ 28%] source/rdkit.Chem.MolCatalog writing output... [ 29%] source/rdkit.Chem.MolDb writing output... [ 29%] source/rdkit.Chem.MolDb.FingerprintUtils writing output... [ 30%] source/rdkit.Chem.MolDb.Loader writing output... [ 30%] source/rdkit.Chem.MolDb.Loader_orig writing output... [ 30%] source/rdkit.Chem.MolDb.Loader_sa writing output... [ 31%] source/rdkit.Chem.MolKey writing output... [ 31%] source/rdkit.Chem.MolKey.InchiInfo writing output... [ 31%] source/rdkit.Chem.MolKey.MolKey writing output... [ 32%] source/rdkit.Chem.MolStandardize writing output... [ 32%] source/rdkit.Chem.MolStandardize.rdMolStandardize writing output... [ 33%] source/rdkit.Chem.MolSurf writing output... [ 33%] source/rdkit.Chem.PandasTools writing output... [ 33%] source/rdkit.Chem.PeriodicTable writing output... [ 34%] source/rdkit.Chem.Pharm2D writing output... [ 34%] source/rdkit.Chem.Pharm2D.Generate writing output... [ 34%] source/rdkit.Chem.Pharm2D.Gobbi_Pharm2D writing output... [ 35%] source/rdkit.Chem.Pharm2D.Matcher writing output... [ 35%] source/rdkit.Chem.Pharm2D.SigFactory writing output... [ 36%] source/rdkit.Chem.Pharm2D.Utils writing output... [ 36%] source/rdkit.Chem.Pharm3D writing output... [ 36%] source/rdkit.Chem.Pharm3D.EmbedLib writing output... [ 37%] source/rdkit.Chem.Pharm3D.ExcludedVolume writing output... [ 37%] source/rdkit.Chem.Pharm3D.Pharmacophore writing output... [ 37%] source/rdkit.Chem.PropertyMol writing output... [ 38%] source/rdkit.Chem.PyMol writing output... [ 38%] source/rdkit.Chem.QED writing output... [ 39%] source/rdkit.Chem.Randomize writing output... [ 39%] source/rdkit.Chem.Recap writing output... [ 39%] source/rdkit.Chem.ReducedGraphs writing output... [ 40%] source/rdkit.Chem.RegistrationHash writing output... [ 40%] source/rdkit.Chem.SATIS writing output... [ 40%] source/rdkit.Chem.SaltRemover writing output... [ 41%] source/rdkit.Chem.Scaffolds writing output... [ 41%] source/rdkit.Chem.Scaffolds.MurckoScaffold writing output... [ 42%] source/rdkit.Chem.Scaffolds.rdScaffoldNetwork writing output... [ 42%] source/rdkit.Chem.ShowMols writing output... [ 42%] source/rdkit.Chem.SimpleEnum writing output... [ 43%] source/rdkit.Chem.SimpleEnum.Enumerator writing output... [ 43%] source/rdkit.Chem.SpacialScore writing output... [ 43%] source/rdkit.Chem.Subshape writing output... [ 44%] source/rdkit.Chem.Subshape.BuilderUtils writing output... [ 44%] source/rdkit.Chem.Subshape.SubshapeAligner writing output... [ 45%] source/rdkit.Chem.Subshape.SubshapeBuilder writing output... [ 45%] source/rdkit.Chem.Subshape.SubshapeObjects writing output... [ 45%] source/rdkit.Chem.Suppliers writing output... [ 46%] source/rdkit.Chem.Suppliers.DbMolSupplier writing output... [ 46%] source/rdkit.Chem.Suppliers.MolSupplier writing output... [ 46%] source/rdkit.Chem.TemplateAlign writing output... [ 47%] source/rdkit.Chem.TorsionFingerprints writing output... [ 47%] source/rdkit.Chem.fmcs writing output... [ 48%] source/rdkit.Chem.fmcs.fmcs writing output... [ 48%] source/rdkit.Chem.inchi writing output... [ 48%] source/rdkit.Chem.rdAbbreviations writing output... [ 49%] source/rdkit.Chem.rdCIPLabeler writing output... [ 49%] source/rdkit.Chem.rdChemReactions writing output... [ 49%] source/rdkit.Chem.rdChemicalFeatures writing output... [ 50%] source/rdkit.Chem.rdCoordGen writing output... [ 50%] source/rdkit.Chem.rdDepictor writing output... [ 51%] source/rdkit.Chem.rdDeprotect writing output... [ 51%] source/rdkit.Chem.rdDetermineBonds writing output... [ 51%] source/rdkit.Chem.rdDistGeom writing output... [ 52%] source/rdkit.Chem.rdEHTTools writing output... [ 52%] source/rdkit.Chem.rdEnumerateStereoisomers writing output... [ 52%] source/rdkit.Chem.rdFMCS writing output... [ 53%] source/rdkit.Chem.rdFingerprintGenerator writing output... [ 53%] source/rdkit.Chem.rdForceFieldHelpers writing output... [ 54%] source/rdkit.Chem.rdFreeSASA writing output... [ 54%] source/rdkit.Chem.rdGeneralizedSubstruct writing output... [ 54%] source/rdkit.Chem.rdMHFPFingerprint writing output... [ 55%] source/rdkit.Chem.rdMIF writing output... [ 55%] source/rdkit.Chem.rdMMPA writing output... [ 55%] source/rdkit.Chem.rdMolAlign writing output... [ 56%] source/rdkit.Chem.rdMolCatalog writing output... [ 56%] source/rdkit.Chem.rdMolChemicalFeatures writing output... [ 57%] source/rdkit.Chem.rdMolDescriptors writing output... [ 57%] source/rdkit.Chem.rdMolEnumerator writing output... [ 57%] source/rdkit.Chem.rdMolHash writing output... [ 58%] source/rdkit.Chem.rdMolInterchange writing output... [ 58%] source/rdkit.Chem.rdMolProcessing writing output... [ 58%] source/rdkit.Chem.rdMolTransforms writing output... [ 59%] source/rdkit.Chem.rdPartialCharges writing output... [ 59%] source/rdkit.Chem.rdRGroupDecomposition writing output... [ 60%] source/rdkit.Chem.rdRascalMCES writing output... [ 60%] source/rdkit.Chem.rdReducedGraphs writing output... [ 60%] source/rdkit.Chem.rdSLNParse writing output... [ 61%] source/rdkit.Chem.rdShapeAlign writing output... [ 61%] source/rdkit.Chem.rdShapeHelpers writing output... [ 61%] source/rdkit.Chem.rdSubstructLibrary writing output... [ 62%] source/rdkit.Chem.rdSynthonSpaceSearch writing output... [ 62%] source/rdkit.Chem.rdTautomerQuery writing output... [ 63%] source/rdkit.Chem.rdchem writing output... [ 63%] source/rdkit.Chem.rdfiltercatalog writing output... [ 63%] source/rdkit.Chem.rdfragcatalog writing output... [ 64%] source/rdkit.Chem.rdinchi writing output... [ 64%] source/rdkit.Chem.rdmolfiles writing output... [ 64%] source/rdkit.Chem.rdmolops writing output... [ 65%] source/rdkit.Chem.rdqueries writing output... [ 65%] source/rdkit.Chem.rdtrajectory writing output... [ 66%] source/rdkit.DataManip writing output... [ 66%] source/rdkit.DataManip.Metric writing output... [ 66%] source/rdkit.DataManip.Metric.rdMetricMatrixCalc writing output... [ 67%] source/rdkit.DataStructs writing output... [ 67%] source/rdkit.DataStructs.BitEnsemble writing output... [ 67%] source/rdkit.DataStructs.BitEnsembleDb writing output... [ 68%] source/rdkit.DataStructs.BitUtils writing output... [ 68%] source/rdkit.DataStructs.LazySignature writing output... [ 69%] source/rdkit.DataStructs.TopNContainer writing output... [ 69%] source/rdkit.DataStructs.VectCollection writing output... [ 69%] source/rdkit.DataStructs.cDataStructs writing output... [ 70%] source/rdkit.Dbase writing output... [ 70%] source/rdkit.Dbase.DbConnection writing output... [ 70%] source/rdkit.Dbase.DbInfo writing output... [ 71%] source/rdkit.Dbase.DbModule writing output... [ 71%] source/rdkit.Dbase.DbResultSet writing output... [ 72%] source/rdkit.Dbase.DbUtils writing output... [ 72%] source/rdkit.Dbase.StorageUtils writing output... [ 72%] source/rdkit.DistanceGeometry writing output... [ 73%] source/rdkit.DistanceGeometry.DistGeom writing output... [ 73%] source/rdkit.ForceField writing output... [ 73%] source/rdkit.ForceField.rdForceField writing output... [ 74%] source/rdkit.Geometry writing output... [ 74%] source/rdkit.Geometry.rdGeometry writing output... [ 75%] source/rdkit.ML writing output... [ 75%] source/rdkit.ML.Cluster writing output... [ 75%] source/rdkit.ML.Cluster.Butina writing output... [ 76%] source/rdkit.ML.Cluster.ClusterUtils writing output... [ 76%] source/rdkit.ML.Cluster.ClusterVis writing output... [ 76%] source/rdkit.ML.Cluster.Clustering writing output... [ 77%] source/rdkit.ML.Cluster.Clusters writing output... [ 77%] source/rdkit.ML.Cluster.Murtagh writing output... [ 78%] source/rdkit.ML.Cluster.Resemblance writing output... [ 78%] source/rdkit.ML.Cluster.Standardize writing output... [ 78%] source/rdkit.ML.Data writing output... [ 79%] source/rdkit.ML.Data.DataUtils writing output... [ 79%] source/rdkit.ML.Data.FindQuantBounds writing output... [ 79%] source/rdkit.ML.Data.MLData writing output... [ 80%] source/rdkit.ML.Data.Quantize writing output... [ 80%] source/rdkit.ML.Data.SplitData writing output... [ 81%] source/rdkit.ML.Data.Stats writing output... [ 81%] source/rdkit.ML.Data.Transforms writing output... [ 81%] source/rdkit.ML.Data.cQuantize writing output... [ 82%] source/rdkit.ML.Descriptors writing output... [ 82%] source/rdkit.ML.Descriptors.CompoundDescriptors writing output... [ 82%] source/rdkit.ML.Descriptors.Descriptors writing output... [ 83%] source/rdkit.ML.Descriptors.MoleculeDescriptors writing output... [ 83%] source/rdkit.ML.Descriptors.Parser writing output... [ 84%] source/rdkit.ML.InfoTheory writing output... [ 84%] source/rdkit.ML.InfoTheory.BitClusterer writing output... [ 84%] source/rdkit.ML.InfoTheory.BitRank writing output... [ 85%] source/rdkit.ML.InfoTheory.entropy writing output... [ 85%] source/rdkit.ML.InfoTheory.rdInfoTheory writing output... [ 85%] source/rdkit.ML.MLUtils writing output... [ 86%] source/rdkit.ML.MLUtils.VoteImg writing output... [ 86%] source/rdkit.ML.MatOps writing output... [ 87%] source/rdkit.ML.SLT writing output... [ 87%] source/rdkit.ML.SLT.Risk writing output... [ 87%] source/rdkit.ML.Scoring writing output... [ 88%] source/rdkit.ML.Scoring.Scoring writing output... [ 88%] source/rdkit.ML.files writing output... [ 88%] source/rdkit.Numerics writing output... [ 89%] source/rdkit.Numerics.rdAlignment writing output... [ 89%] source/rdkit.RDConfig writing output... [ 90%] source/rdkit.RDLogger writing output... [ 90%] source/rdkit.RDPaths writing output... [ 90%] source/rdkit.RDRandom writing output... [ 91%] source/rdkit.SimDivFilters writing output... [ 91%] source/rdkit.SimDivFilters.SimilarityPickers writing output... [ 91%] source/rdkit.SimDivFilters.rdSimDivPickers writing output... [ 92%] source/rdkit.TestRunner writing output... [ 92%] source/rdkit.VLib writing output... [ 93%] source/rdkit.VLib.Filter writing output... [ 93%] source/rdkit.VLib.Node writing output... [ 93%] source/rdkit.VLib.NodeLib writing output... [ 94%] source/rdkit.VLib.NodeLib.DbMolSupply writing output... [ 94%] source/rdkit.VLib.NodeLib.DbPickleSupplier writing output... [ 94%] source/rdkit.VLib.NodeLib.SDSupply writing output... [ 95%] source/rdkit.VLib.NodeLib.SmartsMolFilter writing output... [ 95%] source/rdkit.VLib.NodeLib.SmartsRemover writing output... [ 96%] source/rdkit.VLib.NodeLib.SmilesDupeFilter writing output... [ 96%] source/rdkit.VLib.NodeLib.SmilesOutput writing output... [ 96%] source/rdkit.VLib.NodeLib.SmilesSupply writing output... [ 97%] source/rdkit.VLib.Output writing output... [ 97%] source/rdkit.VLib.Supply writing output... [ 97%] source/rdkit.VLib.Transform writing output... [ 98%] source/rdkit.rdBase writing output... [ 98%] source/rdkit.utils writing output... [ 99%] source/rdkit.utils.cactvs writing output... [ 99%] source/rdkit.utils.chemutils writing output... [ 99%] source/rdkit.utils.fileutils writing output... [100%] source/rdkit.utils.listutils writing output... [100%] source/rdkit.utils.spiral /build/reproducible-path/rdkit-202603.2/Docs/Book/GettingStartedWithContributing.md:284: WARNING: 'myst' cross-reference target not found: 'building-rdkit-for-development' [myst.xref_missing] generating indices... genindex done writing additional pages... search done copying images... [ 1%] images/RDKitCB_0_im0.png copying images... [ 1%] images/RDKitCB_0_im1.png copying images... [ 2%] images/RDKitCB_0_im2.png copying images... [ 3%] images/RDKitCB_40_im0.png copying images... [ 3%] images/RDKitCB_40_im1.png copying images... [ 4%] images/RDKitCB_23_im0.png copying images... [ 5%] images/RDKitCB_23_im1.png copying images... [ 5%] images/RDKitCB_32_im0.png copying images... [ 6%] images/RDKitCB_32_im1.png copying images... [ 6%] images/RDKitCB_1_im0.png copying images... [ 7%] images/RDKitCB_1_im1.png copying images... [ 8%] images/RDKitCB_1_im2.png copying images... [ 8%] images/RDKitCB_1_im3.png copying images... [ 9%] images/RDKitCB_2_im0.png copying images... [ 10%] images/RDKitCB_2_im1.png copying images... [ 10%] images/RDKitCB_36_im0.png copying images... [ 11%] images/RDKitCB_36_im1.png copying images... [ 12%] images/RDKitCB_38_im0.png copying images... [ 12%] images/RDKitCB_39_im0.png copying images... [ 13%] images/RDKitCB_17_im0.png copying images... [ 14%] images/RDKitCB_17_im1.png copying images... [ 14%] images/RDKitCB_34_im0.png copying images... [ 15%] images/RDKitCB_34_im1.png copying images... [ 16%] images/RDKitCB_34_im2.png copying images... [ 16%] images/RDKitCB_37_im0.png copying images... [ 17%] images/RDKitCB_37_im1.png copying images... [ 18%] images/RDKitCB_37_im2.svg copying images... [ 18%] images/RDKitCB_35_im0.png copying images... [ 19%] images/RDKitCB_3_im0.png copying images... [ 19%] images/RDKitCB_8_im0.png copying images... [ 20%] images/RDKitCB_30_im0.png copying images... [ 21%] images/RDKitCB_30_im1.png copying images... [ 21%] images/RDKitCB_7_im0.png copying images... [ 22%] images/RDKitCB_7_im1.png copying images... [ 23%] images/RDKitCB_7_im2.png copying images... [ 23%] images/RDKitCB_7_im3.png copying images... [ 24%] images/RDKitCB_7_im4.png copying images... [ 25%] images/RDKitCB_7_im5.png copying images... [ 25%] images/RDKitCB_7_im6.png copying images... [ 26%] images/RDKitCB_29_im0.png copying images... [ 27%] images/RDKitCB_33_im0.png copying images... [ 27%] images/RDKitCB_33_im1.png copying images... [ 28%] images/RDKitCB_33_im2.png copying images... [ 29%] images/RDKitCB_13_im0.png copying images... [ 29%] images/RDKitCB_13_im1.png copying images... [ 30%] images/RDKitCB_20_im0.png copying images... [ 31%] images/RDKitCB_21_im0.png copying images... [ 31%] images/RDKitCB_21_im1.png copying images... [ 32%] images/RDKitCB_21_im2.png copying images... [ 32%] images/RDKitCB_21_im3.png copying images... [ 33%] images/RDKitCB_21_im4.png copying images... [ 34%] images/RDKitCB_21_im5.png copying images... [ 34%] images/RDKitCB_22_im0.png copying images... [ 35%] images/RDKitCB_22_im1.png copying images... [ 36%] images/RDKitCB_6_im0.png copying images... [ 36%] images/RDKitCB_6_im1.png copying images... [ 37%] images/RDKitCB_6_im2.png copying images... [ 38%] images/RDKitCB_15_im0.png copying images... [ 38%] images/RDKitCB_15_im1.png copying images... [ 39%] images/RDKitCB_19_im0.png copying images... [ 40%] images/RDKitCB_28_im0.png copying images... [ 40%] images/RDKitCB_28_im1.png copying images... [ 41%] images/picture_5.png copying images... [ 42%] images/Cc1ccccc1.png copying images... [ 42%] images/picture_1.png copying images... [ 43%] images/picture_0.png copying images... [ 44%] images/picture_3.png copying images... [ 44%] images/picture_2.png copying images... [ 45%] images/picture_4.png copying images... [ 45%] images/cdk2_mol1.png copying images... [ 46%] images/cdk2_mol2.png copying images... [ 47%] images/cdk2_molgrid.png copying images... [ 47%] images/cdk2_molgrid_aligned.png copying images... [ 48%] images/atom_highlights_1.png copying images... [ 49%] images/atom_highlights_2.png copying images... [ 49%] images/atom_highlights_3.png copying images... [ 50%] images/atom_annotation_1.png copying images... [ 51%] images/atom_labels_1.png copying images... [ 51%] images/atom_labels_2.png copying images... [ 52%] images/atom_labels_3.png copying images... [ 53%] images/mol_metadata1.png copying images... [ 53%] images/substruct_search_parameters1.png copying images... [ 54%] images/mcs_example_1.png copying images... [ 55%] images/mcs_example_2.png copying images... [ 55%] images/mcs_example_3.png copying images... [ 56%] images/mcs_example_4.png copying images... [ 56%] images/mcs_example_5.png copying images... [ 57%] images/mcs_example_6.png copying images... [ 58%] images/mfp2_bit872.svg copying images... [ 58%] images/rdk_bit1553.svg copying images... [ 59%] images/rdk_bit1553_2.svg copying images... [ 60%] images/similarity_map_fp1.png copying images... [ 60%] images/similarity_map_fp2.png copying images... [ 61%] images/similarity_map_fp3.png copying images... [ 62%] images/similarity_map_charges.png copying images... [ 62%] images/similarity_map_crippen.png copying images... [ 63%] images/reaction1.png copying images... [ 64%] images/reaction1_highlight.png copying images... [ 64%] images/picture_6.png copying images... [ 65%] images/picture_9.png copying images... [ 66%] images/picture_8.png copying images... [ 66%] images/picture_7.png copying images... [ 67%] images/picture_10.png copying images... [ 68%] images/picture_12.png copying images... [ 68%] images/picture_11.png copying images... [ 69%] images/parastereo_1.png copying images... [ 69%] images/parastereo_2.png copying images... [ 70%] images/potential_stereo_double_bond1.png copying images... [ 71%] images/potential_stereo_double_bond2.png copying images... [ 71%] images/potential_stereo_double_bond3.png copying images... [ 72%] images/nontetstereo_sp1.png copying images... [ 73%] images/nontetstereo_sp2.png copying images... [ 73%] images/nontetstereo_sp3.png copying images... [ 74%] images/nontetstereo_sp4.png copying images... [ 75%] images/nontetstereo_tb2.png copying images... [ 75%] images/nontetstereo_tb1.png copying images... [ 76%] images/nontetstereo_oh2.png copying images... [ 77%] images/nontetstereo_oh1.png copying images... [ 77%] images/nontetstereo_ex1.png copying images... [ 78%] images/nontetstereo_ex2.png copying images... [ 79%] images/nontetstereo_missing1.png copying images... [ 79%] images/picture_10.jpg copying images... [ 80%] images/ary_group.png copying images... [ 81%] ../Code/images/enhanced_stereo_and1_and2_base.png copying images... [ 81%] ../Code/images/enhanced_stereo_and1_and2_expand.png copying images... [ 82%] ../Code/images/enhanced_stereo_and1_cis_base.png copying images... [ 82%] ../Code/images/enhanced_stereo_and1_cis_expand.png copying images... [ 83%] ../Code/images/enhanced_stereo_and1_trans_base.png copying images... [ 84%] ../Code/images/enhanced_stereo_and1_trans_expand.png copying images... [ 84%] ../Code/images/enhanced_stereo_or1_or2_base.png copying images... [ 85%] ../Code/images/enhanced_stereo_or1_cis_base.png copying images... [ 86%] ../Code/images/enhanced_stereo_or1_trans_base.png copying images... [ 86%] ../Code/images/enhanced_stereo_abs_and_base.png copying images... [ 87%] ../Code/images/enhanced_stereo_abs_and_expand.png copying images... [ 88%] ../Code/images/enhanced_stereo_abs_or_base.png copying images... [ 88%] images/EnhancedStereoSSS_molA.png copying images... [ 89%] images/EnhancedStereoSSS_molB.png copying images... [ 90%] images/EnhancedStereoSSS_molC.png copying images... [ 90%] images/EnhancedStereoSSS_molD.png copying images... [ 91%] images/EnhancedStereoSSS_molE.png copying images... [ 92%] images/EnhancedStereoSSS_molF.png copying images... [ 92%] images/EnhancedStereoSSS_molG.png copying images... [ 93%] images/atrop_example1.png copying images... [ 94%] images/atrop_example2.png copying images... [ 94%] images/atrop_example3.png copying images... [ 95%] images/atrop_representation1.png copying images... [ 95%] images/atrop_example4.png copying images... [ 96%] images/atrop_example5.png copying images... [ 97%] images/atrop_representation2.png copying images... [ 97%] images/query_bonds.png copying images... [ 98%] images/query_bonds.2.png copying images... [ 99%] images/query_atoms.png copying images... [ 99%] images/PeptideConversion.png copying images... [100%] images/DnaDoubleStrand.png dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 391 warnings. The HTML pages are in _build/html. Build finished. The HTML pages are in _build/html. make[2]: Leaving directory '/build/reproducible-path/rdkit-202603.2/Docs/Book' # latexpdf build fails due to https://github.com/rdkit/rdkit/issues/8850 # (cd /build/reproducible-path/rdkit-202603.2/Docs/Book; RDBASE=/build/reproducible-path/rdkit-202603.2 /usr/bin/make latexpdf) make[1]: Leaving directory '/build/reproducible-path/rdkit-202603.2' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/rdkit-202603.2' cp -r rdkit obj-*/ find /build/reproducible-path/rdkit-202603.2 -name rdchem.so /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so PYTHONPATH=/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/:/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//rdkit/Chem/ LD_LIBRARY_PATH="/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib:" dh_auto_test cd obj-x86_64-linux-gnu && make -j6 test ARGS\+=--verbose ARGS\+=-j6 make[2]: Entering directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' Running tests... /usr/bin/ctest --timeout=7200 --verbose -j6 UpdateCTestConfiguration from :/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/rdkit-202603.2/obj-x86_64-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-202603.2/obj-x86_64-linux-gnu/External/CoordGen/testCoordGen 1: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/CoordGen 1: Test timeout computed to be: 7200 test 2 Start 2: pyCoordGen 2: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/External/CoordGen/Wrap/testCoordGen.py" 2: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/External/CoordGen/Wrap 2: Test timeout computed to be: 7200 test 3 Start 3: testDict 3: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral/testDict 3: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral 3: Test timeout computed to be: 7200 test 4 Start 4: testRDValue 4: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral/testRDValue 4: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral 4: Test timeout computed to be: 7200 test 5 Start 5: testConcurrentQueue 5: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral/testConcurrentQueue 5: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral 5: Test timeout computed to be: 7200 test 6 Start 6: dictTestsCatch 6: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral/dictTestsCatch 6: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral 6: Test timeout computed to be: 7200 3: Randomness seeded to: 1188023717 3: static boost any:0.000243 s 3: dynamic boost any:0.000566 s 3: static RDAny:8.9e-05 s 3: dynamic RDAny:0.000595 s 3: static RDValue:1e-06 s 3: dynamic RDValue:1e-06 s 3: [09:21:42] done: 0.00027 300000 4: Randomness seeded to: 264559668 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 (79 assertions in 10 test cases) 4: 1/254 Test #4: testRDValue ............................ Passed 0.00 sec 3: [09:21:42] done: 0.000365 300000 test 7 Start 7: logTestsCatch 7: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral/logTestsCatch 7: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/RDGeneral 7: Test timeout computed to be: 7200 3: [09:21:42] done: 0.000251 300000 6: Randomness seeded to: 2659980757 6: =============================================================================== 6: All tests passed (40 assertions in 4 test cases) 6: 2/254 Test #6: dictTestsCatch ......................... Passed 0.00 sec 3: [09:21:42] done: 0.001417 300000 test 8 Start 8: testDataStructs 8: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/testDataStructs 8: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs 8: Test timeout computed to be: 7200 3: [09:21:42] done: 0.000244 300000 3: =============================================================================== 3: All tests passed (227 assertions in 10 test cases) 3: 3/254 Test #3: testDict ............................... Passed 0.01 sec 7: [09:21:42] should not be silent 7: [09:21:42] should not be silent 7: Randomness seeded to: 2210062502 7: [09:21:42] should not be silent 7: [09:21:42] should not be silent 7: [09:21:42] should not be silent 7: [09:21:42] should not be silent 7: [09:21:42] should not be silent 7: [09:21:42] should not be silent 7: [09:21:42] should not be silent 7: [09:21:42] after restore 7: [09:21:42] test warning test 9 Start 9: testFPB 9: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/testFPB 9: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs 9: Test timeout computed to be: 7200 7: [09:21:42] should not be silent 7: =============================================================================== 7: All tests passed (44 assertions in 4 test cases) 7: 4/254 Test #7: logTestsCatch .......................... Passed 0.00 sec test 10 Start 10: testMultiFPB 10: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/testMultiFPB 10: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs 10: Test timeout computed to be: 7200 8: Randomness seeded to: 853749300 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 (1057 assertions in 23 test cases) 8: 5/254 Test #8: testDataStructs ........................ Passed 0.01 sec test 11 Start 11: catchDataStructs 11: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/catchDataStructs 11: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs 11: Test timeout computed to be: 7200 9: Randomness seeded to: 2781971446 9: =============================================================================== 9: All tests passed (632 assertions in 12 test cases) 9: 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: 6/254 Test #9: testFPB ................................ Passed 0.01 sec 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: test 12 Start 12: pyBV 12: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/DataStructs/Wrap/testBV.py" 12: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap 12: Test timeout computed to be: 7200 1: templated 1: RDKit 2D 1: 1: 7 7 0 0 0 0 0 0 0 0999 V2000 1: 0.6824 0.1850 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.1850 -0.6824 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.6824 -0.1850 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.1850 0.6824 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 2 6 1 0 1: 6 7 1 0 1: 7 1 1 0 1: M END 1: 1: core 1: RDKit 2D 1: 1: 10 10 0 0 0 0 0 0 0 0999 V2000 1: -1.2956 -1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2984 -0.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4338 0.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4366 1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4280 1.7512 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2956 1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2984 0.2536 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4338 -0.2488 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4366 -1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4280 -1.7512 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 1 1 0 1: M END 1: 1: core+sidechain 1: RDKit 2D 1: 1: 12 12 0 0 0 0 0 0 0 0999 V2000 1: 0.2846 -0.7516 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.2790 -1.7516 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5898 -2.2466 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4530 -1.7418 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.4476 -0.7418 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5788 -0.2468 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.5732 0.7532 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.2956 1.2484 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.3012 2.2482 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.1700 2.7434 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.1590 0.7434 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.1534 -0.2564 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 8 11 1 0 1: 11 12 1 0 1: 12 1 1 0 1: M END 1: 1: templated 1: RDKit 2D 1: 1: 12 12 0 0 0 0 0 0 0 0999 V2000 1: -1.2984 -0.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4338 0.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4366 1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4280 1.7512 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2956 1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2984 0.2536 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4338 -0.2488 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4366 -1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.0000 0.0000 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4280 -1.7512 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2956 -1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 8 11 1 0 1: 11 12 1 0 1: 12 1 1 0 1: M END 1: 1: core 1: RDKit 2D 1: 1: 10 10 0 0 0 0 0 0 0 0999 V2000 1: -1.2956 -1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.2984 -0.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4338 0.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4366 1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4280 1.7512 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2956 1.2536 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.2984 0.2536 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4338 -0.2488 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.4366 -1.2488 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.4280 -1.7512 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: 1 2 1 0 1: 2 3 1 0 1: 3 4 1 0 1: 4 5 1 0 1: 5 6 1 0 1: 6 7 1 0 1: 7 8 1 0 1: 8 9 1 0 1: 9 10 1 0 1: 10 1 1 0 1: M END 1: 10: Randomness seeded to: 692049243 10: =============================================================================== 10: All tests passed (228 assertions in 7 test cases) 10: 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: 7/254 Test #10: testMultiFPB ........................... Passed 0.01 sec test 13 Start 13: pyDiscreteValueVect 13: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/DataStructs/Wrap/testDiscreteValueVect.py" 13: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap 13: Test timeout computed to be: 7200 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: 11: Randomness seeded to: 227972534 11: =============================================================================== 11: All tests passed (12 assertions in 2 test cases) 11: 8/254 Test #11: catchDataStructs ....................... Passed 0.01 sec 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: test 14 Start 14: pyRealValueVect 14: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/DataStructs/Wrap/testRealValueVect.py" 14: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap 14: Test timeout computed to be: 7200 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: -0.2902 0.4155 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5740 0.9187 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4418 0.4219 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.3060 0.9249 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 2.3024 1.9249 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 1.4454 -0.5781 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: 0.5812 -1.0813 0.0000 N 0 0 0 0 0 0 0 0 0 0 0 0 1: -0.2866 -0.5843 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -1.1508 -1.0875 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.0186 -0.5905 0.0000 C 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.0222 0.4095 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 1: -2.8828 -1.0937 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: 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: 9/254 Test #1: testCoordGen ........................... Passed 0.13 sec test 15 Start 15: pySparseIntVect 15: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/DataStructs/Wrap/testSparseIntVect.py" 15: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap 15: Test timeout computed to be: 7200 13: ...... 13: ---------------------------------------------------------------------- 13: Ran 6 tests in 0.056s 13: 13: OK 14: ...... 14: ---------------------------------------------------------------------- 14: Ran 6 tests in 0.054s 14: 14: OK 10/254 Test #13: pyDiscreteValueVect .................... Passed 0.14 sec test 16 Start 16: pyFPB 16: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/DataStructs/Wrap/testFPB.py" 16: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataStructs/Wrap 16: Test timeout computed to be: 7200 11/254 Test #14: pyRealValueVect ........................ Passed 0.14 sec test 17 Start 17: testTransforms 17: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/testTransforms 17: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry 17: Test timeout computed to be: 7200 2: .... 2: ---------------------------------------------------------------------- 2: Ran 4 tests in 0.014s 2: 2: OK 17: Randomness seeded to: 1579295957 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 (158 assertions in 7 test cases) 17: 12/254 Test #17: testTransforms ......................... Passed 0.01 sec test 18 Start 18: testGrid 18: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/testGrid 18: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry 18: Test timeout computed to be: 7200 18: Randomness seeded to: 712425042 18: =============================================================================== 18: All tests passed (79 assertions in 5 test cases) 18: 13/254 Test #18: testGrid ............................... Passed 0.01 sec test 19 Start 19: testRealValueGrid 19: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/testRealValueGrid 19: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry 19: Test timeout computed to be: 7200 14/254 Test #2: pyCoordGen ............................. Passed 0.20 sec test 20 Start 20: geometryTestsCatch 20: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/geometryTestsCatch 20: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry 20: Test timeout computed to be: 7200 15: ......... 15: ---------------------------------------------------------------------- 15: Ran 9 tests in 0.004s 15: 15: OK 20: Randomness seeded to: 1978984812 20: =============================================================================== 20: All tests passed (98 assertions in 6 test cases) 20: 15/254 Test #20: geometryTestsCatch ..................... Passed 0.01 sec test 21 Start 21: testPyGeometry 21: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/Geometry/Wrap/testGeometry.py" 21: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Geometry/Wrap 21: Test timeout computed to be: 7200 19: Randomness seeded to: 3144135434 19: =============================================================================== 19: All tests passed (52 assertions in 4 test cases) 19: 16/254 Test #19: testRealValueGrid ...................... Passed 0.02 sec test 22 Start 22: testMatrices 22: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/testMatrices 22: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics 22: Test timeout computed to be: 7200 22: Randomness seeded to: 766226336 22: =============================================================================== 22: All tests passed (81 assertions in 4 test cases) 22: 17/254 Test #22: testMatrices ........................... Passed 0.00 sec test 23 Start 23: testConrec 23: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/testConrec 23: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics 23: Test timeout computed to be: 7200 18/254 Test #15: pySparseIntVect ........................ Passed 0.08 sec test 24 Start 24: testAlignment 24: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment/testAlignment 24: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment 24: Test timeout computed to be: 7200 24: Randomness seeded to: 3233813442 24: =============================================================================== 24: All tests passed (26 assertions in 4 test cases) 24: 19/254 Test #24: testAlignment .......................... Passed 0.01 sec test 25 Start 25: pyAlignment 25: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/Numerics/Alignment/Wrap/testAlignment.py" 25: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Alignment/Wrap 25: Test timeout computed to be: 7200 16: ......... 16: ---------------------------------------------------------------------- 16: Ran 9 tests in 0.003s 16: 16: OK 23: Randomness seeded to: 1970896567 23: =============================================================================== 23: All tests passed (76 assertions in 3 test cases) 23: 20/254 Test #23: testConrec ............................. Passed 0.02 sec test 26 Start 26: testOptimizer 26: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Optimizer/testOptimizer 26: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Numerics/Optimizer 26: Test timeout computed to be: 7200 21/254 Test #16: pyFPB .................................. Passed 0.08 sec test 27 Start 27: ForceFieldsCatch 27: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/ForceFieldsCatch 27: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField 27: Test timeout computed to be: 7200 26: Randomness seeded to: 184265142 26: =============================================================================== 26: All tests passed (26 assertions in 2 test cases) 26: 22/254 Test #26: testOptimizer .......................... Passed 0.01 sec test 28 Start 28: testUFFForceField 28: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/UFF/testUFFForceField 28: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/UFF 28: Test timeout computed to be: 7200 27: Randomness seeded to: 3676335911 27: =============================================================================== 27: All tests passed (20 assertions in 2 test cases) 27: 23/254 Test #27: ForceFieldsCatch ....................... Passed 0.01 sec test 29 Start 29: testMMFFForceField 29: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/MMFF/testMMFFForceField 29: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/MMFF 29: Test timeout computed to be: 7200 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. 29: ------------------------------------- 29: Official MMFF validation suite. 28: done 28: ------------------------------------- 28: Unit tests for copying UFF ForceFields. 28: done 28: ------------------------------------- 28: Unit test for UFF butane scan. 21: .................... 21: ---------------------------------------------------------------------- 21: Ran 20 tests in 0.032s 21: 21: OK 21: Testing Geometry wrapper 29: 29: Computing MMFF94 energies for /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/test_data/MMFF94_dative.sdf... 24/254 Test #21: testPyGeometry ......................... Passed 0.12 sec test 30 Start 30: pyForceFieldConstraints 30: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/ForceField/Wrap/testConstraints.py" 30: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ForceField/Wrap 30: Test timeout computed to be: 7200 25: ..... 25: ---------------------------------------------------------------------- 25: Ran 5 tests in 0.001s 25: 25: OK 25: Testing Alignment Wrapper code: 25/254 Test #25: pyAlignment ............................ Passed 0.13 sec test 31 Start 31: testDistGeom 31: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom/testDistGeom 31: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom 31: Test timeout computed to be: 7200 31: Randomness seeded to: 752365225 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: 26/254 Test #31: testDistGeom ........................... Passed 0.01 sec test 32 Start 32: pyDistGeom 32: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/DistGeom/Wrap/rough_test.py" 32: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DistGeom/Wrap 32: Test timeout computed to be: 7200 28: done 28: ------------------------------------- 28: Test finite difference gradient check (P(F)(F)F). 28: done 27/254 Test #28: testUFFForceField ...................... Passed 0.15 sec test 33 Start 33: graphmolTest1 33: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 33: Test timeout computed to be: 7200 33: Atoms: 33: 0 8 O chg: 0 deg: 2 exp: 2 imp: 0 hyb: 33: 1 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: 33: 2 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: 33: 3 6 C chg: 0 deg: 1 exp: 1 imp: 3 hyb: 33: 4 6 C chg: 0 deg: 1 exp: 1 imp: 3 hyb: 33: 5 6 C chg: 0 deg: 1 exp: 3 imp: 1 hyb: 33: 6 6 C chg: 0 deg: 2 exp: 4 imp: 0 hyb: 33: 7 7 N chg: 0 deg: 2 exp: N/A imp: N/A hyb: arom?: 1 query: AtomAtomicNum 33: 8 22 Ti chg: 0 deg: 1 exp: N/A imp: N/A hyb: 33: Bonds: 33: 0 0->1 order: 1 33: 1 1->2 order: 2 33: 2 2->3 order: 1 33: 3 0->4 order: 1 33: 4 5->6 order: 3 33: 5 6->7 order: 1 33: 6 7->8 order: 2 33: [09:21:43] 33: 33: **** 33: Pre-condition Violation 33: bond already exists 33: Violation occurred on line 507 in file ./Code/GraphMol/RWMol.cpp 33: Failed Expression: !(boost::edge(atomIdx1, atomIdx2, d_graph).second) 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# RDKit::RWMol::addBond(unsigned int, unsigned int, RDKit::Bond::BondType) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 33: 3# 0x0000000000027516 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000000000020D81 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 5# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 6# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 7# 0x0000000000020E21 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [09:21:43] 33: 33: **** 33: Pre-condition Violation 33: bond already exists 33: Violation occurred on line 507 in file ./Code/GraphMol/RWMol.cpp 33: Failed Expression: !(boost::edge(atomIdx1, atomIdx2, d_graph).second) 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# RDKit::RWMol::addBond(unsigned int, unsigned int, RDKit::Bond::BondType) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 33: 3# 0x0000000000014597 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000000000020D81 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 5# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 6# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 7# 0x0000000000020E21 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [09:21:43] 33: 33: **** 33: Pre-condition Violation 33: attempt to add self-bond 33: Violation occurred on line 506 in file ./Code/GraphMol/RWMol.cpp 33: Failed Expression: atomIdx1 != atomIdx2 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# RDKit::RWMol::addBond(unsigned int, unsigned int, RDKit::Bond::BondType) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 33: 3# 0x0000000000014696 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000000000020D81 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 5# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 6# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 7# 0x0000000000020E21 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [09:21:43] 33: 33: **** 33: Pre-condition Violation 33: bond already exists 33: Violation occurred on line 412 in file ./Code/GraphMol/ROMol.cpp 33: Failed Expression: !(boost::edge(bond_pin->getBeginAtomIdx(), bond_pin->getEndAtomIdx(), d_graph) .second) 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# RDKit::ROMol::addBond(RDKit::Bond*, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 33: 3# 0x00000000000146D3 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000000000020D81 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 5# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 6# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 7# 0x0000000000020E21 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [09:21:43] 33: 33: **** 33: Pre-condition Violation 33: attempt to add self-bond 33: Violation occurred on line 410 in file ./Code/GraphMol/ROMol.cpp 33: Failed Expression: bond_pin->getBeginAtomIdx() != bond_pin->getEndAtomIdx() 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# RDKit::ROMol::addBond(RDKit::Bond*, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 33: 3# 0x0000000000014471 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000000000020D81 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 5# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 6# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 7# 0x0000000000020E21 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [09:21:43] Explicit valence for atom # 0 B, 4, is greater than permitted 33: [09:21:43] Explicit valence for atom # 0 B, 4, is greater than permitted 33: [09:21:43] 33: 33: **** 33: Post-condition Violation 33: Element 'Xx' not found 33: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 33: Failed Expression: anum > -1 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 3# 0x000000000004E19B in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000000000032D23 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 5# 0x0000000000020D90 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 6# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 7# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 8# 0x0000000000020E21 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [09:21:43] ------------------------------------- 33: [09:21:43] Test github381: thread-safe initialization of the periodic table 33: [09:21:43] done 33: [09:21:43] ------------------------------------- 33: [09:21:43] Test github1041: Segfault for atom with no owner (expect some warnings) 33: [09:21:43] 33: 33: **** 33: Pre-condition Violation 33: no owner 33: Violation occurred on line 157 in file ./Code/GraphMol/Atom.h 33: Failed Expression: dp_mol 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# 0x000000000003FAFE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 3# 0x0000000000020DBD in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 5# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 6# 0x0000000000020E21 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [09:21:43] 33: 33: **** 33: Pre-condition Violation 33: no owner 33: Violation occurred on line 188 in file ./Code/GraphMol/Bond.h 33: Failed Expression: dp_mol 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# 0x000000000002068D in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 3# 0x0000000000020DBD in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 5# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 6# 0x0000000000020E21 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [09:21:43] done 33: [09:21:43] ------------------------------------- 33: [09:21:43] Test github1041: Segfault for atom with no owner (expect some warnings) 33: [09:21:43] 33: 33: **** 33: Pre-condition Violation 33: no owner 33: Violation occurred on line 157 in file ./Code/GraphMol/Atom.h 33: Failed Expression: dp_mol 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# 0x000000000003FAFE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 3# 0x0000000000020DC2 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 5# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 6# 0x0000000000020E21 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [09:21:43] 33: 33: **** 33: Pre-condition Violation 33: no owner 33: Violation occurred on line 188 in file ./Code/GraphMol/Bond.h 33: Failed Expression: dp_mol 33: ---------- 33: Stacktrace: 33: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 33: 2# 0x000000000002068D in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 3# 0x0000000000020DC2 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: 4# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 5# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 33: 6# 0x0000000000020E21 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTest1 33: ---------- 33: **** 33: 33: [09:21:43] done 33: [09:21:43] ------------------------------------- 33: [09:21:43] Test github1453: RWMol.clear() should reset the numBonds count. 33: [09:21:43] done 33: [09:21:43] ------------------------------------- 33: [09:21:43] Test range-based for loops. 33: [09:21:43] done 33: [09:21:43] ------------------------------------- 33: [09:21:43] Test github1642: Atom index type is too low for big molecules. 32: ...... 32: ---------------------------------------------------------------------- 32: Ran 6 tests in 0.001s 32: 32: OK 28/254 Test #32: pyDistGeom ............................. Passed 0.14 sec test 34 Start 34: graphmolcpTest 34: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolcpTest 34: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 34: Test timeout computed to be: 7200 34: 34: 34: 34: COPY 29/254 Test #34: graphmolcpTest ......................... Passed 0.01 sec test 35 Start 35: graphmolqueryTest 35: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolqueryTest 35: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 35: Test timeout computed to be: 7200 35: [09:21:43] ---------------------- Test1 30: ...[09:21:43] Molecule does not have explicit Hs. Consider calling AddHs() 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test2 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test3 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test4 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test5 35: [09:21:43] Done! 35: [09:21:43] 35: 35: **** 35: Pre-condition Violation 35: Can't expand empty query 35: Violation occurred on line 30 in file ./Code/GraphMol/QueryAtom.cpp 35: Failed Expression: dp_query 35: ---------- 35: Stacktrace: 35: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 35: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 35: 2# RDKit::QueryAtom::expandQuery(Queries::Query*, Queries::CompositeQueryType, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 35: 3# 0x000000000001ADFF in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolqueryTest 35: 4# 0x0000000000015ECB in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolqueryTest 35: 5# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 35: 6# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 35: 7# 0x0000000000015F41 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolqueryTest 35: ---------- 35: **** 35: 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test issue 2892580 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test github issue 53: query molecules not matching [R] 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test queries using qualifiers instead of == 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test Github issue 165: radicals not used in atom-atom matching 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test extra atom queries 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test extra bond queries 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test num heteroatom neighbor queries 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test atom type queries 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Test Github #2471: dummy atom queries are flagged as complex 35: [09:21:43] Done! 35: [09:21:43] ---------------------- Testing hasBondTypeQuery() and hasComplexBondTypeQuery() 35: [09:21:43] Done! 30/254 Test #35: graphmolqueryTest ...................... Passed 0.01 sec test 36 Start 36: graphmolMolOpsTest 36: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolMolOpsTest 36: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 36: Test timeout computed to be: 7200 36: Randomness seeded to: 2997468233 36: 1 1 2 36: 1 1 1 36: 2 1 0.75 36: ------------------------------- 36: path: 2 36: [09:21:43] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 10 ignored 36: [09:21:43] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 10 ignored 36: [09:21:43] Explicit valence for atom # 0 B, 5, is greater than permitted 36: [09:21:43] Explicit valence for atom # 1 C, 5, is greater than permitted 36: [09:21:43] Explicit valence for atom # 1 C, 5, is greater than permitted 36: [09:21:43] Explicit valence for atom # 1 C, 5, is greater than permitted 36: [09:21:43] Explicit valence for atom # 1 Si, 7, is greater than permitted 36: smi: Cc1ccc(S(=O)(=O)\N=C2/CC(=N\C(C)(C)C)/C2=N\C(C)(C)C)cc1 36: [09:21:43] non-ring atom 0 marked aromatic 36: [09:21:43] non-ring atom 0 marked aromatic 36: [09:21:43] Conflicting single bond directions around double bond at index 17. 36: [09:21:43] BondStereo set to STEREONONE and single bond directions set to NONE. 36: starting ring finding 36: done 36: starting ring finding 36: done 36: starting ring finding 36: done 36: C/C=N/c1ccc(cc1)c1cc2cc(c1)c1ccc(cc1)N=Cc1ccc(cc1)c1cc(cc(c1)c1ccc(cc1)C)c1ccc(cc1)C=Nc1ccc(cc1)c1cc(cc(c1)c1ccc(cc1)/N=C/C)c1ccc(cc1)N=Cc1ccc(cc1)c1cc(c3ccc(C=Nc4ccc(c5cc6c7ccc(N=Cc8ccc(c9cc(c%10ccc(C=Nc%11ccc2cc%11)cc%10)cc(c9)c2ccc(cc2)C=Nc2ccc(cc2)c2cc(cc(c2)c2ccc(cc2)N=Cc2ccc(cc2)c2cc(cc(c2)c2ccc(cc2)C)c2ccc(cc2)C=Nc2ccc(cc2)c2cc(c9ccc(N=Cc%10ccc(c%11cc(c%12ccc(C=Nc%13ccc(c(c6)c5)cc%13)cc%12)cc(c%11)c5ccc(cc5)C)cc%10)cc9)cc(c2)c2ccc(cc2)/N=C/C)c2ccc(cc2)/N=C/C)cc8)cc7)cc4)cc3)cc(c1)c1ccc(cc1)C 36: starting sanitization 36: done 36: starting sanitization 36: done 36: starting ring finding 36: done 36: smiles: CC[C@]1(C(=O)c([nH])n)CC[C@](C)(O)CC1 36: [09:21:43] WARNING: not removing hydrogen atom with dummy atom neighbors 36: [09:21:43] Explicit valence for atom # 0 N, 4, is greater than permitted 36: [09:21:43] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 36: [09:21:43] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 36: [09:21:43] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 36: [09:21:43] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 36: [09:21:43] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 36: [09:21:43] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 36: [09:21:43] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 36: [09:21:43] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 36: 36: [09:21:43] WARNING: not removing hydrogen atom with dummy atom neighbors 30: ......[09:21:43] Molecule does not have explicit Hs. Consider calling AddHs() 36: [09:21:43] Maximum BFS search size exceeded. 36: This is likely due to a highly symmetric fused ring system. 36: [09:21:43] Maximum BFS search size exceeded. 36: This is likely due to a highly symmetric fused ring system. 36: F/C=C/Cl 36: [H]/C(F)=C(/[H])Cl 36: F/C=C/Cl 36: F/C=C/Cl 36: C/C(F)=C(/C)Cl 36: =============================================================================== 36: All tests passed (5666 assertions in 110 test cases) 36: 30: ... 30: ---------------------------------------------------------------------- 30: Ran 12 tests in 0.471s 30: 30: OK 31/254 Test #36: graphmolMolOpsTest ..................... Passed 0.43 sec test 37 Start 37: graphmoltestChirality 37: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmoltestChirality 37: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 37: Test timeout computed to be: 7200 37: -------------------------- 37: -------------------------- 37: C/C=C/C(C)Cl 37: [09:21:43] Conflicting single bond directions around double bond at index 2. 37: [09:21:43] BondStereo set to STEREONONE and single bond directions set to NONE. 37: [09:21:43] Conflicting single bond directions around double bond at index 4. 37: [09:21:43] BondStereo set to STEREONONE and single bond directions set to NONE. 37: [09:21:43] Conflicting single bond directions around double bond at index 15. 37: [09:21:43] BondStereo set to STEREONONE and single bond directions set to NONE. 37: [09:21:43] Conflicting single bond directions around double bond at index 2. 37: [09:21:43] BondStereo set to STEREONONE and single bond directions set to NONE. 37: [09:21:43] Conflicting single bond directions around double bond at index 1. 37: [09:21:43] BondStereo set to STEREONONE and single bond directions set to NONE. 32/254 Test #30: pyForceFieldConstraints ................ Passed 0.68 sec test 38 Start 38: graphmoltestPickler 38: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmoltestPickler 38: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 38: Test timeout computed to be: 7200 37: -------------------------------------------------- 33/254 Test #37: graphmoltestChirality .................. Passed 0.04 sec test 39 Start 39: graphmoltestPicklerGlobalSetting 39: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmoltestPicklerGlobalSetting 39: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 39: Test timeout computed to be: 7200 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing String Pickle Roundtrips. 39: [09:21:43] done 34/254 Test #39: graphmoltestPicklerGlobalSetting ....... Passed 0.01 sec test 40 Start 40: graphmolIterTest 40: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolIterTest 40: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 40: Test timeout computed to be: 7200 35/254 Test #40: graphmolIterTest ....................... Passed 0.01 sec test 41 Start 41: hanoiTest 41: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/hanoiTest 41: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 41: Test timeout computed to be: 7200 41: [09:21:43] Testing the hanoi sort 41: [09:21:43] populating vectors 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing reading existing pickle file (v2). 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing combining molecules using pickles. 38: Atoms: 38: 0 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 38: 1 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 38: 2 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 38: 3 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 38: 4 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 38: 5 8 O chg: 0 deg: 2 exp: 2 imp: 0 hyb: SP3 38: 6 6 C chg: 0 deg: 2 exp: 2 imp: 2 hyb: SP3 38: Bonds: 38: 0 0->1 order: 1 38: 1 1->2 order: 1 38: 2 2->0 order: 1 38: 3 3->4 order: 1 38: 4 4->5 order: 1 38: 5 5->6 order: 1 38: 6 6->3 order: 1 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing Issue164: Roundtrip Pickle Failure. 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing Issue219: Pickle Failure with Conformations. 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing Issue220: Pickle problems with bond stereochemistry. 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing query serialization. 38: [09:21:43] C=[$(C=O)] 38: [09:21:43] S(=O)(=O)-[C&H2][F,Br,I,Cl] S(=O)(=O)-[C&H2][F,Br,I,Cl] 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing radical handling in pickles. 38: [09:21:43] done 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing sf.net issue 2788233. 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing sf.net issue 3202580. 38: mass! 13.0034 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing sf.net issue 3316407. 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing sf.net issue 3496759. 38: smi match: *C *C 38: smi match: **=* **=* 38: smi match: [N-]=[N+]=NC=O [N-]=[N+]=NC=O 38: smi match: *OS(=O)OC *OS(=O)OC 38: smi match: *S(=O)(=O)OC *S(=O)(=O)OC 38: smi match: O=COC=O O=COC=O 38: smi match: OO OO 38: smi match: O=COc1c(F)c(F)c(F)c(F)c1F O=COc1c(F)c(F)c(F)c(F)c1F 38: smi match: O=COc1ccc(N(=O)=O)cc1 O=COc1ccc(N(=O)=O)cc1 38: smi match: nnnOC=O nnnOC=O 38: smi match: *=C=N *=C=N 38: smi match: OS(=O)(=O)C(F)(F)F OS(=O)(=O)C(F)(F)F 38: smi match: SP(S)=S SP(S)=S 38: smi match: NP(N)(N)=O NP(N)(N)=O 38: smi match: cN=[N+]=[N-] cN=[N+]=[N-] 38: smi match: *CC=O *CC=O 38: smi match: NNC=O NNC=O 38: smi match: * * 38: smi match: C=P C=P 38: smi match: CC(=N)Cl CC(=N)Cl 38: smi match: N=O N=O 38: smi match: ** ** 38: smi match: N=C=N N=C=N 38: smi match: [C-]#[NH+] [C-]#[NH+] 38: smi match: O=CON(C=O)C=O O=CON(C=O)C=O 38: smi match: N#CC[OH] N#CC[OH] 38: smi match: N#CC=O N#CC=O 38: smi match: N#CS(=O)=O N#CS(=O)=O 38: smi match: CCOP(=O)(C#N)OCC CCOP(=O)(C#N)OCC 38: smi match: N#CN=N N#CN=N 38: smi match: N=NCC=O N=NCC=O 38: smi match: CCCCCCC CCCCCCC 38: smi match: OCCOCCO OCCOCCO 38: smi match: SS SS 38: smi match: [SH] [SH] 38: smi match: *1CC1 *1CC1 38: smi match: [OH]ccc([OH])c[OH] [OH]ccc([OH])c[OH] 38: smi match: [OH]cc([OH])c[OH] [OH]cc([OH])c[OH] 38: smi match: NC(=S)N=N NC(=S)N=N 38: smi match: N#CS N#CS 38: smi match: cC[N+] cC[N+] 38: smi match: C*C=S C*C=S 38: smi match: N[CH2]C#N N[CH2]C#N 38: smi match: O=C1CCO1 O=C1CCO1 38: smi match: O=P([OH])OP(=O)[OH] O=P([OH])OP(=O)[OH] 38: smi match: O=C1CCN1 O=C1CCN1 38: smi match: O=C1C~CC(=O)C~C1 O=C1C~CC(=O)C~C1 38: smi match: C=CC=CC=CC=C C=CC=CC=CC=C 38: smi match: C1CCC(OC2CCC3CCCCC3C2)OC1 C1CCC(OC2CCC3CCCCC3C2)OC1 38: smi match: O=C1NCC2CCCCC21 O=C1NCC2CCCCC21 38: smi match: O=C1CCCC(=O)N1 O=C1CCCC(=O)N1 38: smi match: C1CCC(C2CCCO2)OC1 C1CCC(C2CCCO2)OC1 38: smi match: [OH]C1Cc2c([OH])cc([OH])cc2OC1c1ccc([OH])c([OH])c1 [OH]C1Cc2c([OH])cc([OH])cc2OC1c1ccc([OH])c([OH])c1 38: smi match: C1CC2CCC(O1)O2 C1CC2CCC(O1)O2 38: smi match: cN(=O)~O cN(=O)~O 38: smi match: *[CH2]N1C(=O)CCC1=O *[CH2]N1C(=O)CCC1=O 38: smi match: N~NC=O N~NC=O 38: smi match: *=N~C *=N~C 38: smi match: CO*(=O)=O CO*(=O)=O 38: smi match: * * 38: smi match: * * 38: smi match: *C=C *C=C 38: smi match: N#CS N#CS 38: smi match: *C=S *C=S 38: smi match: *N *N 38: smi match: *C(=C)C=O *C(=C)C=O 38: smi match: *C#C *C#C 38: smi match: N#CCO N#CCO 38: smi match: O=N(=O)CCO O=N(=O)CCO 38: smi match: N=CS N=CS 38: smi match: O=CNC(O)C=O O=CNC(O)C=O 38: smi match: C=C(C=O)C=O C=C(C=O)C=O 38: smi match: N=CC=O N=CC=O 38: smi match: *C(C=O)C=O *C(C=O)C=O 38: smi match: *C(C=O)=C(*)C=O *C(C=O)=C(*)C=O 38: smi match: O=CC=CC=O O=CC=CC=O 38: smi match: O=CN(O)C=O O=CN(O)C=O 38: smi match: O=CN(S)C=O O=CN(S)C=O 38: smi match: O=CNC=O O=CNC=O 38: smi match: O=CNN=O O=CNN=O 38: smi match: O=CNNC=O O=CNNC=O 38: smi match: O=CNOC=O O=CNOC=O 38: smi match: O=CS O=CS 38: smi match: O=CSC=S O=CSC=S 38: smi match: S=CS S=CS 38: smi match: C=O C=O 38: smi match: *C=N *C=N 38: smi match: CCCCCCC CCCCCCC 38: smi match: CN=O CN=O 38: smi match: CS(=O)(=O)O CS(=O)(=O)O 38: smi match: O=C1CCO1 O=C1CCO1 38: smi match: C=C(S)[SH]=O C=C(S)[SH]=O 38: smi match: C=CCO C=CCO 38: smi match: C=CC=N C=CC=N 38: smi match: C=CC=O C=CC=O 38: smi match: C=CC(=O)C=C C=CC(=O)C=C 38: smi match: C=CC=S C=CC=S 38: smi match: C=CC(=S)S C=CC(=S)S 38: smi match: *C=C(*)C=C *C=C(*)C=C 38: smi match: C=CC=N C=CC=N 38: smi match: *N(*)C=C *N(*)C=C 38: smi match: C=CN(=O)=O C=CN(=O)=O 38: smi match: C=CN(O)=O C=CN(O)=O 38: smi match: C=CO C=CO 38: smi match: C=COC=O C=COC=O 38: smi match: C=CS C=CS 38: smi match: C=C[SH](=O)=O C=C[SH](=O)=O 38: smi match: C=NCO C=NCO 38: smi match: C=NC=O C=NC=O 38: smi match: C=NN C=NN 38: smi match: C=NN=C C=NN=C 38: smi match: C=NO C=NO 38: smi match: C=NOC=O C=NOC=O 38: smi match: C=N=O C=N=O 38: smi match: N#CS N#CS 38: smi match: *CN=O *CN=O 38: smi match: NCN NCN 38: smi match: ON=CCN=O ON=CCN=O 38: smi match: NC(S)=N[SH](=O)=O NC(S)=N[SH](=O)=O 38: smi match: N=C(N)S N=C(N)S 38: smi match: NC(=O)Oc1ccccc1 NC(=O)Oc1ccccc1 38: smi match: NC=S NC=S 38: smi match: NC(N)=S NC(N)=S 38: smi match: C=CN C=CN 38: smi match: NOC=O NOC=O 38: smi match: C1CN1 C1CN1 38: smi match: O=C1NNNN1 O=C1NNNN1 38: smi match: N=C(N)C(=N)N N=C(N)C(=N)N 38: smi match: N=C(N)O N=C(N)O 38: smi match: N=C(N)C(=N)S N=C(N)C(=N)S 38: smi match: *C=N *C=N 38: smi match: N=CC=O N=CC=O 38: smi match: N=CS N=CS 38: smi match: N=C=N N=C=N 38: smi match: N=C=O N=C=O 38: smi match: N=C=S N=C=S 38: smi match: NOC(=O)O NOC(=O)O 38: smi match: *C(O)=S *C(O)=S 38: smi match: C=CO C=CO 38: smi match: ON=CC=NO ON=CC=NO 38: smi match: *C[SH](=O)=O *C[SH](=O)=O 38: smi match: OS(=O)=O OS(=O)=O 38: smi match: N#CS N#CS 38: smi match: C=C(S)S C=C(S)S 38: smi match: N=C(N)S N=C(N)S 38: smi match: N=C(S)S N=C(S)S 38: smi match: NC(=S)S NC(=S)S 38: smi match: O=CNS O=CNS 38: smi match: S S 38: smi match: [SiH4] [SiH4] 38: smi match: NS NS 38: smi match: NCN NCN 38: smi match: cC(c)(O)O cC(c)(O)O 38: smi match: *C(c)O *C(c)O 38: smi match: C=CS(c)(=O)=O C=CS(c)(=O)=O 38: smi match: cS(=O)(=O)O cS(=O)(=O)O 38: smi match: *c1ccccn1=O *c1ccccn1=O 38: smi match: *c1ccccn1 *c1ccccn1 38: smi match: *c1nccccn1 *c1nccccn1 38: smi match: C1COCOC1 C1COCOC1 38: smi match: C=S C=S 38: smi match: c=S c=S 38: smi match: S=CS S=CS 38: smi match: C=CN(=O)=O C=CN(=O)=O 38: smi match: C=CN(=O)O C=CN(=O)O 38: smi match: N=CC=O N=CC=O 38: smi match: C=CS C=CS 38: smi match: SC(S)(S)S SC(S)(S)S 38: smi match: OS(O)(O)O OS(O)(O)O 38: smi match: O=N(=O)C[SH](=O)=O O=N(=O)C[SH](=O)=O 38: smi match: O=N(O)C[SH](=O)=O O=N(O)C[SH](=O)=O 38: smi match: N#CS N#CS 38: smi match: C=NO C=NO 38: smi match: C=N[SH]=N C=N[SH]=N 38: smi match: O=C(S)S O=C(S)S 38: smi match: N=C(S)S N=C(S)S 38: smi match: N=C(=N)S N=C(=N)S 38: smi match: O=N=O O=N=O 38: smi match: O=NO O=NO 38: smi match: ONO ONO 38: smi match: C1SCS1 C1SCS1 38: smi match: N=C=S N=C=S 38: smi match: N=C=N N=C=N 38: smi match: C1N=N1 C1N=N1 38: smi match: *CS *CS 38: smi match: SC(S)=C(S)S SC(S)=C(S)S 38: smi match: N=CC=NO N=CC=NO 38: smi match: N#CCC#N N#CCC#N 38: smi match: CON=O CON=O 38: smi match: C=CN C=CN 38: smi match: C=N[SH](=O)=O C=N[SH](=O)=O 38: smi match: NN=O NN=O 38: smi match: NC(=O)S NC(=O)S 38: smi match: N#CS N#CS 38: smi match: NC(=O)C(N)=O NC(=O)C(N)=O 38: smi match: c=N c=N 38: smi match: C1COCO1 C1COCO1 38: smi match: C=NN[SH](=O)=O C=NN[SH](=O)=O 38: smi match: O=CC=O O=CC=O 38: smi match: O=CNOC=O O=CNOC=O 38: smi match: O=C1C=CC(=O)C=C1 O=C1C=CC(=O)C=C1 38: smi match: ONO ONO 38: smi match: ON(~O)~O ON(~O)~O 38: smi match: OC1COC(O)C1 OC1COC(O)C1 38: smi match: OC1CCOC1O OC1CCOC1O 38: smi match: OC1CCOC(O)C1 OC1CCOC(O)C1 38: smi match: N=[N+]=N N=[N+]=N 38: smi match: N#CN N#CN 38: smi match: C=NN=C C=NN=C 38: smi match: *CCN(C)C *CCN(C)C 38: smi match: CNN CNN 38: smi match: *CC *CC 38: smi match: OCS OCS 38: smi match: C1NO1 C1NO1 38: smi match: COS(C)(=O)=O COS(C)(=O)=O 38: smi match: C1CO1 C1CO1 38: smi match: *c1-c-c-ccN1 *c1-c-c-ccN1 38: smi match: *C(*)=C *C(*)=C 38: smi match: N#[NH+] N#[NH+] 38: smi match: C#NO C#NO 38: smi match: OOO OOO 38: smi match: OO OO 38: smi match: O~Cl(~O)~O O~Cl(~O)~O 38: smi match: O~Cl(~O)(~O)~O O~Cl(~O)(~O)~O 38: smi match: [OH]~C(~O)~O [OH]~C(~O)~O 38: smi match: *N *N 38: smi match: *P *P 38: smi match: *S *S 38: smi match: *C(*)(*)C=C *C(*)(*)C=C 38: smi match: *C(*)(*)C=C *C(*)(*)C=C 38: smi match: *C(*)C=C *C(*)C=C 38: smi match: *CC=C *CC=C 38: smi match: CN=C=O CN=C=O 38: smi match: CN=C=S CN=C=S 38: smi match: *C=O *C=O 38: smi match: N=N N=N 38: smi match: SS SS 38: smi match: O=C1CCNC(=O)O1 O=C1CCNC(=O)O1 38: smi match: CSC(C)=N CSC(C)=N 38: smi match: COC(C)=N COC(C)=N 38: smi match: C=C=C C=C=C 38: smi match: *C(=O)OC=O *C(=O)OC=O 38: smi match: C=CC#N C=CC#N 38: smi match: C=CC=O C=CC=O 38: smi match: CC=CC(C)=O CC=CC(C)=O 38: smi match: CC=CC(=O)OCC CC=CC(=O)OCC 38: smi match: C#CC#N C#CC#N 38: smi match: C#CC=O C#CC=O 38: smi match: C#CC(=O)OCC C#CC(=O)OCC 38: smi match: C#CC=O C#CC=O 38: smi match: *C(=O)C#C *C(=O)C#C 38: smi match: C=CC=O C=CC=O 38: smi match: *C(*)(*)O *C(*)(*)O 38: smi match: COS(O)(=O)=O COS(O)(=O)=O 38: smi match: CS(=O)(=O)[O-] CS(=O)(=O)[O-] 38: smi match: NS(=O)(=O)[O-] NS(=O)(=O)[O-] 38: smi match: *C(*)(*)C=O *C(*)(*)C=O 38: smi match: *C(*)(*)C=O *C(*)(*)C=O 38: smi match: *C(*)C=O *C(*)C=O 38: smi match: *CC=O *CC=O 38: smi match: *C(*)(*)[SH](=O)=O *C(*)(*)[SH](=O)=O 38: smi match: *C(*)(*)[SH](=O)=O *C(*)(*)[SH](=O)=O 38: smi match: *C(*)[SH](=O)=O *C(*)[SH](=O)=O 38: smi match: *C[SH](=O)=O *C[SH](=O)=O 38: smi match: * * 38: smi match: *1CC1 *1CC1 38: smi match: O=COC=O O=COC=O 38: smi match: N=C=O N=C=O 38: smi match: N=C=S N=C=S 38: smi match: O~O O~O 38: smi match: N~[SiH4] N~[SiH4] 38: smi match: *P *P 38: smi match: C=N=N C=N=N 38: smi match: *N#[NH+] *N#[NH+] 38: smi match: *S* *S* 38: smi match: ** ** 38: smi match: *CC* *CC* 38: smi match: *O[SiH3] *O[SiH3] 38: smi match: *OS(*)~O *OS(*)~O 38: smi match: N~N~O N~N~O 38: smi match: *N(~O)(~O)~O *N(~O)(~O)~O 38: smi match: *[N+](=C)[O-] *[N+](=C)[O-] 38: smi match: * * 38: smi match: *C(*)NCN(*)* *C(*)NCN(*)* 38: smi match: *OCC#N *OCC#N 38: smi match: **C=C **C=C 38: smi match: C=C[O-] C=C[O-] 38: smi match: C=CO C=CO 38: smi match: * * 38: smi match: O=CON1C(=O)CCC1=O O=CON1C(=O)CCC1=O 38: smi match: O=COn1ccnc1 O=COn1ccnc1 38: smi match: O=COc1c(F)c(F)c(F)c(F)c1F O=COc1c(F)c(F)c(F)c(F)c1F 38: smi match: CC(C)(C)S CC(C)(C)S 38: smi match: [CH2][CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~C [CH2][CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~[CH]~C 38: smi match: [CH]=O [CH]=O 38: smi match: C~[CH2]~[CH2]~[CH2]~[CH2]~[CH2]~C C~[CH2]~[CH2]~[CH2]~[CH2]~[CH2]~C 38: smi match: SS SS 38: smi match: [SH] [SH] 38: smi match: *C* *C* 38: smi match: * * 38: smi match: C[nH3+] C[nH3+] 38: smi match: cC(=N)[NH2] cC(=N)[NH2] 38: smi match: O=CN[OH] O=CN[OH] 38: smi match: NN NN 38: smi match: * * 38: smi match: *OP(=O)O* *OP(=O)O* 38: smi match: * * 38: smi match: * * 38: smi match: * * 38: smi match: *N=C(*)* *N=C(*)* 38: smi match: *C(*)(*)C=O *C(*)(*)C=O 38: smi match: CSC=O CSC=O 38: smi match: * * 38: smi match: O=CCl O=CCl 38: smi match: *** *** 38: smi match: *C=O *C=O 38: smi match: C[OH] C[OH] 38: smi match: C[OH] C[OH] 38: smi match: C[OH] C[OH] 38: smi match: C[OH] C[OH] 38: smi match: C[CH]=O C[CH]=O 38: smi match: *=* *=* 38: smi match: *C *C 38: smi match: C#C C#C 38: smi match: *[CH]C=C *[CH]C=C 38: smi match: cCC(=O)[OH] cCC(=O)[OH] 38: smi match: *C(*)(*)C(=O)[OH] *C(*)(*)C(=O)[OH] 38: smi match: CC(=O)C(=O)[OH] CC(=O)C(=O)[OH] 38: smi match: C=CC(=O)[OH] C=CC(=O)[OH] 38: smi match: N#CC(=O)[OH] N#CC(=O)[OH] 38: smi match: O=C([OH])CN(~O)~O O=C([OH])CN(~O)~O 38: smi match: *N(*)C*=O *N(*)C*=O 38: smi match: O=*C[OH] O=*C[OH] 38: smi match: *=C*=O *=C*=O 38: smi match: *=CC#N *=CC#N 38: smi match: *C[OH] *C[OH] 38: smi match: ** ** 38: smi match: *C[OH] *C[OH] 38: smi match: *C(*)=O *C(*)=O 38: smi match: * * 38: smi match: *CC(=O)[OH] *CC(=O)[OH] 38: smi match: CC(=O)OC(C)=O CC(=O)OC(C)=O 38: smi match: *c *c 38: smi match: CN(C)c CN(C)c 38: smi match: c c 38: smi match: *c *c 38: smi match: *c *c 38: smi match: **:*cF **:*cF 38: smi match: cB([OH])[OH] cB([OH])[OH] 38: smi match: N~N~N N~N~N 38: smi match: *N=N* *N=N* 38: smi match: *CC[OH] *CC[OH] 38: smi match: *CC[OH] *CC[OH] 38: smi match: *=CCC(=O)[OH] *=CCC(=O)[OH] 38: smi match: O=C([OH])CC[OH] O=C([OH])CC[OH] 38: smi match: *CCC(=O)[OH] *CCC(=O)[OH] 38: smi match: CC(=O)CC(=O)[OH] CC(=O)CC(=O)[OH] 38: smi match: *OC(=O)CC(C)=O *OC(=O)CC(C)=O 38: smi match: *OC(*)=O *OC(*)=O 38: smi match: *C(=O)[OH] *C(=O)[OH] 38: smi match: O=C[OH] O=C[OH] 38: smi match: *OC(=O)O* *OC(=O)O* 38: smi match: * * 38: smi match: *OC(=O)Cl *OC(=O)Cl 38: smi match: *C#N *C#N 38: smi match: NCC(=O)NCC=O NCC(=O)NCC=O 38: smi match: SS SS 38: smi match: * * 38: smi match: *=* *=* 38: smi match: *=* *=* 38: smi match: *=* *=* 38: smi match: *=* *=* 38: smi match: C1CO1 C1CO1 38: smi match: *OC(*)=O *OC(*)=O 38: smi match: * * 38: smi match: *O*[OH] *O*[OH] 38: smi match: COC(C)(C)O COC(C)(C)O 38: smi match: *[OH] *[OH] 38: smi match: ** ** 38: smi match: C=N[NH2] C=N[NH2] 38: smi match: C=NC=O C=NC=O 38: smi match: * * 38: smi match: C#NC C#NC 38: smi match: CN=C=O CN=C=O 38: smi match: CN=C=S CN=C=S 38: smi match: *OC(*)(*)O* *OC(*)(*)O* 38: smi match: *C(*)=O *C(*)=O 38: smi match: C~C~C~C~C~C~C C~C~C~C~C~C~C 38: smi match: *~*=O *~*=O 38: smi match: *~*=O *~*=O 38: smi match: OC(=O)CC(=O)[OH] OC(=O)CC(=O)[OH] 38: smi match: * * 38: smi match: *C#N *C#N 38: smi match: *N(=O)~O *N(=O)~O 38: smi match: N N 38: smi match: OC(=O)C(O)=O OC(=O)C(O)=O 38: smi match: C=NO C=NO 38: smi match: O~O O~O 38: smi match: c[OH] c[OH] 38: smi match: O=P(~[OH])~O O=P(~[OH])~O 38: smi match: CO~P(=O)~O CO~P(=O)~O 38: smi match: O=P(~[OH])(~O)~O O=P(~[OH])(~O)~O 38: smi match: CO~P(=O)(~O)~O CO~P(=O)(~O)~O 38: smi match: O=P(~O)~O O=P(~O)~O 38: smi match: O=P(~O)(~O)~O O=P(~O)(~O)~O 38: smi match: C[NH2] C[NH2] 38: smi match: O~*1~**~*(~O)~**~1 O~*1~**~*(~O)~**~1 38: smi match: * * 38: smi match: *1~*~*~C2~C(~*~1)~*~*~C1~C3~*~*~*~C~3~*~*~C~2~1 *1~*~*~C2~C(~*~1)~*~*~C1~C3~*~*~*~C~3~*~*~C~2~1 38: smi match: CS(C)~O CS(C)~O 38: smi match: CS(C)(~O)~O CS(C)(~O)~O 38: smi match: CS(N)(~O)~O CS(N)(~O)~O 38: smi match: CS([OH])(~O)~O CS([OH])(~O)~O 38: smi match: COS(C)(~O)~O COS(C)(~O)~O 38: smi match: *S(C)(~O)~O *S(C)(~O)~O 38: smi match: CN(C)C CN(C)C 38: smi match: *c1nnc(=N)s1 *c1nnc(=N)s1 38: smi match: *C(*)=S *C(*)=S 38: smi match: *OC(*)=S *OC(*)=S 38: smi match: * * 38: smi match: C[SH] C[SH] 38: smi match: c[SH] c[SH] 38: smi match: NC(N)=S NC(N)=S 38: smi match: * * 38: smi match: ***** ***** 38: smi match: NC(N)=O NC(N)=O 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing sf.net issue 280. 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing sf.net issue 285. 38: [09:21:43] done 38: [09:21:43] done with testAtomResidues 38: [09:21:43] done 38: [09:21:43] done 38: [09:21:43] done 38: [09:21:43] done 38: [09:21:43] done 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing Github2441: Add RDProps interface to Conformers. 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing Issue2510: Pickle Confs as double. 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing Github #2465: Negative atom-map numbers cause depickling to fail. 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing loading pickled mols with conformers 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing conformer reading/writing options 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing property reading options 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing property reading options 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing boost::serialization integration 38: [09:21:43] done 38: [09:21:43] ------------------------------------- 38: [09:21:43] Testing github issue 6036 36/254 Test #38: graphmoltestPickler .................... Passed 0.11 sec test 42 Start 42: graphmolMemTest1 42: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolMemTest1 42: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 42: Test timeout computed to be: 7200 37/254 Test #42: graphmolMemTest1 ....................... Passed 0.01 sec test 43 Start 43: resMolSupplierTest 43: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/resMolSupplierTest 43: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 43: Test timeout computed to be: 7200 29: Checking against /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 29: All 191 tests passed 41: [09:21:43] sorting (hanoi sort) vectors 29: 29: Computing MMFF94 energies for /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/test_data/MMFF94_hypervalent.sdf... 12: .................. 12: ---------------------------------------------------------------------- 12: Ran 18 tests in 1.463s 12: 12: OK 38/254 Test #12: pyBV ................................... Passed 1.60 sec test 44 Start 44: molBundleTest 44: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/molBundleTest 44: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 44: Test timeout computed to be: 7200 39/254 Test #44: molBundleTest .......................... Passed 0.01 sec test 45 Start 45: testSGroup 45: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/testSGroup 45: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 45: Test timeout computed to be: 7200 40/254 Test #45: testSGroup ............................. Passed 0.02 sec test 46 Start 46: test-valgrind 46: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/test-valgrind 46: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 46: Test timeout computed to be: 7200 41/254 Test #46: test-valgrind .......................... Passed 0.01 sec test 47 Start 47: graphmolTestsCatch 47: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 47: Test timeout computed to be: 7200 47: Randomness seeded to: 4255686929 47: [09:21:44] WARNING: not removing hydrogen atom without neighbors 47: [09:21:44] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [09:21:44] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [09:21:44] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [09:21:44] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [09:21:44] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [09:21:44] Explicit valence for atom # 1 N, 5, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 N, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 N, 5, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 N, 5, is greater than permitted 47: [09:21:44] Explicit valence for atom # 2 O, 3, is greater than permitted 47: [09:21:44] Explicit valence for atom # 2 O, 3, is greater than permitted 47: [09:21:44] non-ring atom 2 marked aromatic 47: [09:21:44] non-ring atom 2 marked aromatic 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 1 2 3 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 1 2 3 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 0 1 2 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 0 1 2 47: [09:21:44] Explicit valence for atom # 1 O, 3, is greater than permitted 47: [09:21:44] Explicit valence for atom # 4 F, 2, is greater than permitted 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 6 7 8 47: [09:21:44] Explicit valence for atom # 1 C, 5, is greater than permitted 47: [09:21:44] WARNING: not removing hydrogen atom with dummy atom neighbors 47: [09:21:44] WARNING: not removing hydrogen atom with dummy atom neighbors 47: [09:21:44] WARNING: not removing hydrogen atom with wedged bond 47: [09:21:44] WARNING: not removing hydrogen atom without neighbors 47: [09:21:44] WARNING: not removing hydrogen atom without neighbors 47: [09:21:44] WARNING: not removing hydrogen atom without neighbors 47: [09:21:44] WARNING: not removing hydrogen atom without neighbors 47: [09:21:44] Unreasonable formal charge on atom # 0. 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: no atom 47: Violation occurred on line 174 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: at 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomDegree(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x00000000000B8B02 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: no owner 47: Violation occurred on line 157 in file ./Code/GraphMol/Atom.h 47: Failed Expression: dp_mol 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# 0x00000000000D0FA2 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# RDKit::ROMol::getAtomDegree(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 4# 0x00000000000B8B8C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 13# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: atom not associated with this molecule 47: Violation occurred on line 175 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: &at->getOwningMol() == this 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomDegree(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x00000000000B8C1F in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: no atom 47: Violation occurred on line 357 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: at 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomNeighbors(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x00000000000B8D0A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: no owner 47: Violation occurred on line 157 in file ./Code/GraphMol/Atom.h 47: Failed Expression: dp_mol 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# 0x00000000000D0FA2 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# RDKit::ROMol::getAtomNeighbors(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 4# 0x00000000000B8D9B in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 13# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: atom not associated with this molecule 47: Violation occurred on line 358 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: &at->getOwningMol() == this 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomNeighbors(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x00000000000B8E37 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: no atom 47: Violation occurred on line 364 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: at 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomBonds(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x00000000000B95F9 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: no owner 47: Violation occurred on line 157 in file ./Code/GraphMol/Atom.h 47: Failed Expression: dp_mol 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# 0x00000000000D0FA2 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# RDKit::ROMol::getAtomBonds(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 4# 0x00000000000B8FA2 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 13# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: atom not associated with this molecule 47: Violation occurred on line 365 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: &at->getOwningMol() == this 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::getAtomBonds(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x00000000000B903C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: null atom passed in 47: Violation occurred on line 379 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: atom_pin 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::addAtom(RDKit::Atom*, bool, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x00000000000B95D1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: cannot take ownership of an atom which already has an owner 47: Violation occurred on line 380 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: !takeOwnership || !atom_pin->hasOwningMol() || &atom_pin->getOwningMol() == this 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::addAtom(RDKit::Atom*, bool, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x00000000000B91FE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: cannot take ownership of an bond which already has an owner 47: Violation occurred on line 405 in file ./Code/GraphMol/ROMol.cpp 47: Failed Expression: !takeOwnership || !bond_pin->hasOwningMol() || &bond_pin->getOwningMol() == this 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::ROMol::addBond(RDKit::Bond*, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x00000000000B95AD in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [09:21:44] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [09:21:44] WARNING: not removing hydrogen atom without neighbors 47: [09:21:44] Explicit valence for atom # 1 F greater than permitted 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: plain atoms have no Query 47: Violation occurred on line 695 in file ./Code/GraphMol/Atom.cpp 47: Failed Expression: 0 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::Atom::setQuery(Queries::Query*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000000000065D60 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: plain atoms have no Query 47: Violation occurred on line 700 in file ./Code/GraphMol/Atom.cpp 47: Failed Expression: 0 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::Atom::expandQuery(Queries::Query*, Queries::CompositeQueryType, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000000000065E01 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: plain bonds have no Query 47: Violation occurred on line 210 in file ./Code/GraphMol/Bond.cpp 47: Failed Expression: 0 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::Bond::setQuery(Queries::Query*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000000000065A85 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] 47: 47: **** 47: Pre-condition Violation 47: plain bonds have no query 47: Violation occurred on line 231 in file ./Code/GraphMol/Bond.cpp 47: Failed Expression: 0 47: ---------- 47: Stacktrace: 47: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 47: 2# RDKit::Bond::expandQuery(Queries::Query*, Queries::CompositeQueryType, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 47: 3# 0x0000000000065B26 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 4# 0x000000000010600C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 5# 0x0000000000107602 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 6# 0x0000000000107A6A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 7# 0x00000000000DA091 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 8# 0x00000000000DA38C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 9# 0x000000000005361E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: 10# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 11# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 47: 12# 0x0000000000053661 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolTestsCatch 47: ---------- 47: **** 47: 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 47: [09:21:44] Unusual charge on atom 0 number of radical electrons set to zero 47: [09:21:44] Unusual charge on atom 0 number of radical electrons set to zero 47: [09:21:44] Unusual charge on atom 0 number of radical electrons set to zero 47: [09:21:44] non-ring atom 0 marked aromatic 47: [09:21:44] non-ring atom 0 marked aromatic 47: [09:21:44] Explicit valence for atom # 1 C, 5, is greater than permitted 47: [09:21:44] Explicit valence for atom # 9 C, 5, is greater than permitted 47: [09:21:44] Explicit valence for atom # 3 N, 4, is greater than permitted 47: [09:21:44] Explicit valence for atom # 15 C, 5, is greater than permitted 47: [09:21:44] Explicit valence for atom # 11 C, 5, is greater than permitted 47: [09:21:44] Explicit valence for atom # 9 C, 5, is greater than permitted 47: [09:21:44] Explicit valence for atom # 9 C, 5, is greater than permitted 47: [09:21:44] Explicit valence for atom # 9 C, 6, is greater than permitted 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 7 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 3 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 3 7 47: [09:21:44] Can't kekulize mol. Unkekulized atoms: 3 7 47: [09:21:44] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [09:21:44] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 47: [09:21:44] Explicit valence for atom # 1 O, 3, is greater than permitted 47: [09:21:44] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 47: [09:21:44] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 47: [09:21:44] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [09:21:44] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [09:21:44] Invalid value for molAttachPoint: 4 on atom 1. Not expanding this atttachment point. 47: [09:21:44] Invalid value for _fromAttachPoint: -1 on atom 0. Not collapsing this atom 47: [09:21:44] Invalid value for _fromAttachPoint: 4 on atom 0. Not collapsing this atom 47: [09:21:44] non-ring atom 0 marked aromatic 47: [09:21:44] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 47: [09:21:44] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 47: [09:21:44] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [09:21:44] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [09:21:44] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [09:21:44] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 47: [09:21:44] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 47: [09:21:44] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [09:21:44] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 47: [09:21:44] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 47: [09:21:44] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 47: [09:21:44] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 47: [09:21:44] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [09:21:44] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 47: [09:21:44] Explicit valence for atom # 0 Al, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 0 Al, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 Si, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 Si, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 0 P, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 0 P, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 0 P, 7, is greater than permitted 47: [09:21:44] Explicit valence for atom # 0 P, 7, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 As, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 As, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 As, 7, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 As, 7, is greater than permitted 47: [09:21:44] Explicit valence for atom # 0 Sb, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 0 Sb, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 0 Sb, 7, is greater than permitted 47: [09:21:44] Explicit valence for atom # 0 Sb, 7, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 Bi, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 Bi, 6, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 Bi, 8, is greater than permitted 47: [09:21:44] Explicit valence for atom # 1 Bi, 8, is greater than permitted 47: =============================================================================== 47: All tests passed (4547 assertions in 115 test cases) 47: 42/254 Test #47: graphmolTestsCatch ..................... Passed 0.17 sec test 48 Start 48: graphmolOrganometallicsCatch 48: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolOrganometallicsCatch 48: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 48: Test timeout computed to be: 7200 48: Randomness seeded to: 3520761115 48: =============================================================================== 48: All tests passed (62 assertions in 6 test cases) 48: 43/254 Test #48: graphmolOrganometallicsCatch ........... Passed 0.03 sec test 49 Start 49: graphmolSGroupCatch 49: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolSGroupCatch 49: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 49: Test timeout computed to be: 7200 49: Randomness seeded to: 3332563768 49: =============================================================================== 49: All tests passed (136 assertions in 8 test cases) 49: 44/254 Test #49: graphmolSGroupCatch .................... Passed 0.02 sec test 50 Start 50: graphmolAdjustQueryCatch 50: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/graphmolAdjustQueryCatch 50: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 50: Test timeout computed to be: 7200 50: Randomness seeded to: 2315342325 50: =============================================================================== 50: All tests passed (332 assertions in 12 test cases) 50: 45/254 Test #50: graphmolAdjustQueryCatch ............... Passed 0.02 sec test 51 Start 51: chiralityTestsCatch 51: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/chiralityTestsCatch 51: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 51: Test timeout computed to be: 7200 51: Randomness seeded to: 4070290557 51: [09:21:44] unable to set wavy bonds for double bonds: 3 51: [09:21:44] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 51: [09:21:44] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 51: [09:21:44] Warning: ambiguous stereochemistry - zero-length (or near zero-length) bond - at atom 1 ignored. 51: [09:21:44] Warning: ambiguous stereochemistry - zero-length (or near zero-length) bond - at atom 1 ignored. 51: [09:21:44] Warning: ambiguous stereochemistry - overlapping neighbors - at atom 2 ignored 51: =============================================================================== 51: All tests passed (2454 assertions in 87 test cases) 51: 46/254 Test #51: chiralityTestsCatch .................... Passed 0.07 sec test 52 Start 52: canonTestsCatch 52: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/canonTestsCatch 52: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 52: Test timeout computed to be: 7200 29: Checking against /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 29: All 191 tests passed 29: 29: Computing MMFF94 energies for /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/test_data/MMFF94_dative.smi... 47/254 Test #43: resMolSupplierTest ..................... Passed 1.45 sec test 53 Start 53: moliteratorTestsCatch 53: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/moliteratorTestsCatch 53: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 53: Test timeout computed to be: 7200 53: Randomness seeded to: 3881320900 53: =============================================================================== 53: All tests passed (23 assertions in 5 test cases) 53: 48/254 Test #53: moliteratorTestsCatch .................. Passed 0.01 sec test 54 Start 54: molrangesTestsCatch 54: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/molrangesTestsCatch 54: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 54: Test timeout computed to be: 7200 54: Randomness seeded to: 3388450078 54: =============================================================================== 54: All tests passed (20 assertions in 2 test cases) 54: 49/254 Test #54: molrangesTestsCatch .................... Passed 0.01 sec test 55 Start 55: queryTestsCatch 55: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/queryTestsCatch 55: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 55: Test timeout computed to be: 7200 41: [09:21:45] done: 500000 41: [09:21:45] Done 55: Randomness seeded to: 3457619429 55: =============================================================================== 55: All tests passed (46 assertions in 2 test cases) 55: 50/254 Test #55: queryTestsCatch ........................ Passed 0.01 sec test 56 Start 56: molbundleTestsCatch 56: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/molbundleTestsCatch 56: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 56: Test timeout computed to be: 7200 56: Randomness seeded to: 469716037 56: =============================================================================== 56: All tests passed (6 assertions in 1 test case) 56: 51/254 Test #56: molbundleTestsCatch .................... Passed 0.01 sec test 57 Start 57: pickleTestsCatch 57: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/pickleTestsCatch 57: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 57: Test timeout computed to be: 7200 41: [09:21:45] Testing hanoi with a functor. 57: Randomness seeded to: 2287082793 57: =============================================================================== 57: All tests passed (45 assertions in 4 test cases) 57: 52/254 Test #57: pickleTestsCatch ....................... Passed 0.02 sec test 58 Start 58: tableTestsCatch 58: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/tableTestsCatch 58: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 58: Test timeout computed to be: 7200 41: [09:21:45] Done 41: [09:21:45] Testing basic partition refinement. 41: [09:21:45] Done 41: [09:21:45] Testing partition refinement with neighbors. 41: [09:21:45] Done 41: [09:21:45] testing canonicalization via tie breaking. 41: [09:21:45] Done 41: [09:21:45] testing canonicalization using the wrapper. 41: [09:21:45] Done 41: [09:21:45] testing some specific ordering problems 58: Randomness seeded to: 1692093102 58: =============================================================================== 58: All tests passed (7 assertions in 2 test cases) 58: 41: [09:21:45] Finished 41: [09:21:45] testing chiral invariants. 53/254 Test #58: tableTestsCatch ........................ Passed 0.01 sec 41: [09:21:45] Finished 41: [09:21:45] testing unique ranks in w.r.t. renumbering. test 59 Start 59: molopsTestsCatch 59: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/molopsTestsCatch 59: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol 59: Test timeout computed to be: 7200 41: [09:21:45] Finished 41: [09:21:45] testing mol fragments. 41: [09:21:45] Finished 41: [09:21:45] testing protein round-tripping. 59: Randomness seeded to: 972033025 59: =============================================================================== 59: All tests passed (507 assertions in 14 test cases) 59: 54/254 Test #59: molopsTestsCatch ....................... Passed 0.03 sec test 60 Start 60: smiTest1 60: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smiTest1 60: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse 60: Test timeout computed to be: 7200 60: Randomness seeded to: 660170661 60: [09:21:45] WARNING: not removing hydrogen atom without neighbors 60: [09:21:45] WARNING: not removing hydrogen atom without neighbors 60: [09:21:45] WARNING: not removing hydrogen atom without neighbors 60: [09:21:45] WARNING: not removing hydrogen atom without neighbors 60: [09:21:45] WARNING: not removing hydrogen atom without neighbors 60: [09:21:45] WARNING: not removing hydrogen atom without neighbors 60: [09:21:45] WARNING: not removing hydrogen atom without neighbors 60: [09:21:45] WARNING: not removing hydrogen atom without neighbors 60: [09:21:45] WARNING: not removing hydrogen atom without neighbors 60: [09:21:45] WARNING: not removing hydrogen atom without neighbors 60: [09:21:45] WARNING: not removing hydrogen atom without neighbors 60: [09:21:45] Invalid chiral specification on atom 0 60: [09:21:45] Invalid chiral specification on atom 0 60: [09:21:45] Invalid chiral specification on atom 0 60: [09:21:45] Invalid chiral specification on atom 0 60: [09:21:45] Invalid chiral specification on atom 0 60: [09:21:45] SMILES Parse Error: unclosed ring for input: 'C1.C11.C' 60: [09:21:45] SMILES Parse Error: unclosed ring for input: 'C1C.CC11CCC' 60: [09:21:45] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 60: [09:21:45] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 60: [09:21:45] SMILES Parse Error: syntax error while parsing: c%()ccccc%() 60: [09:21:45] SMILES Parse Error: check for mistakes around position 4: 60: [09:21:45] c%()ccccc%() 60: [09:21:45] ~~~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'c%()ccccc%()' for input: 'c%()ccccc%()' 60: [09:21:45] SMILES Parse Error: syntax error while parsing: c%(100000)ccccc%(100000) 60: [09:21:45] SMILES Parse Error: check for mistakes around position 9: 60: [09:21:45] c%(100000)ccccc%(100000) 60: [09:21:45] ~~~~~~~~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'c%(100000)ccccc%(100000)' for input: 'c%(100000)ccccc%(100000)' 60: [09:21:45] SMILES Parse Error: duplicated ring closure 1 bonds atom 2 to itself for input: 'C1CC111' 60: [09:21:45] SMILES Parse Error: ring closure 1 duplicates bond between atom 0 and atom 1 for input: 'C1C1' 60: [09:21:45] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 60: [09:21:45] SMILES Parse Error: check for mistakes around position 14: 60: [09:21:45] COc(c1)cccc1C# 60: [09:21:45] ~~~~~~~~~~~~~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 60: [09:21:45] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 14: 60: [09:21:45] COc(c1)cccc1C# 60: [09:21:45] ~~~~~~~~~~~~~^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 60: [09:21:45] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 60: [09:21:45] SMILES Parse Error: check for mistakes around position 14: 60: [09:21:45] COc(c1)cccc1C# 60: [09:21:45] ~~~~~~~~~~~~~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 60: [09:21:45] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 14: 60: [09:21:45] COc(c1)cccc1C# 60: [09:21:45] ~~~~~~~~~~~~~^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 60: [09:21:45] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 60: [09:21:45] SMILES Parse Error: check for mistakes around position 14: 60: [09:21:45] COc(c1)cccc1C# 60: [09:21:45] ~~~~~~~~~~~~~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 60: [09:21:45] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 14: 60: [09:21:45] COc(c1)cccc1C# 60: [09:21:45] ~~~~~~~~~~~~~^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 60: [09:21:45] SMILES Parse Error: extra close parentheses while parsing: C) 60: [09:21:45] SMILES Parse Error: check for mistakes around position 2: 60: [09:21:45] C) 60: [09:21:45] ~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'C)' for input: 'C)' 60: [09:21:45] SMILES Parse Error: syntax error while parsing: CC=(CO)C 60: [09:21:45] SMILES Parse Error: check for mistakes around position 4: 60: [09:21:45] CC=(CO)C 60: [09:21:45] ~~~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'CC=(CO)C' for input: 'CC=(CO)C' 60: [09:21:45] SMARTS Parse Error: syntax error while parsing: CC=(CO)C 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 4: 60: [09:21:45] CC=(CO)C 60: [09:21:45] ~~~^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'CC=(CO)C' for input: 'CC=(CO)C' 60: [09:21:45] SMILES Parse Error: syntax error while parsing: baz 60: [09:21:45] SMILES Parse Error: check for mistakes around position 2: 60: [09:21:45] baz 60: [09:21:45] ~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'baz' for input: 'baz' 60: [09:21:45] SMARTS Parse Error: syntax error while parsing: baz 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 3: 60: [09:21:45] baz 60: [09:21:45] ~~^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'baz' for input: 'baz' 60: [09:21:45] SMILES Parse Error: syntax error while parsing: fff 60: [09:21:45] SMILES Parse Error: check for mistakes around position 1: 60: [09:21:45] fff 60: [09:21:45] ^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'fff' for input: 'fff' 60: [09:21:45] SMARTS Parse Error: syntax error while parsing: fff 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 1: 60: [09:21:45] fff 60: [09:21:45] ^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'fff' for input: 'fff' 60: [09:21:45] SMILES Parse Error: syntax error while parsing: C+0 60: [09:21:45] SMILES Parse Error: check for mistakes around position 2: 60: [09:21:45] C+0 60: [09:21:45] ~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'C+0' for input: 'C+0' 60: [09:21:45] SMARTS Parse Error: syntax error while parsing: C+0 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 2: 60: [09:21:45] C+0 60: [09:21:45] ~^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'C+0' for input: 'C+0' 60: [09:21:45] SMILES Parse Error: number too large while parsing: [555555555555555555C] 60: [09:21:45] SMILES Parse Error: check for mistakes around position 11: 60: [09:21:45] [555555555555555555C] 60: [09:21:45] ~~~~~~~~~~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES '[555555555555555555C]' for input: '[555555555555555555C]' 60: [09:21:45] SMARTS Parse Error: number too large while parsing: [555555555555555555C] 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 11: 60: [09:21:45] [555555555555555555C] 60: [09:21:45] ~~~~~~~~~~^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS '[555555555555555555C]' for input: '[555555555555555555C]' 60: [09:21:45] SMILES Parse Error: syntax error while parsing: [Fe@TD] 60: [09:21:45] SMILES Parse Error: check for mistakes around position 5: 60: [09:21:45] [Fe@TD] 60: [09:21:45] ~~~~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES '[Fe@TD]' for input: '[Fe@TD]' 60: [09:21:45] SMARTS Parse Error: syntax error while parsing: [Fe@TD] 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 5: 60: [09:21:45] [Fe@TD] 60: [09:21:45] ~~~~^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS '[Fe@TD]' for input: '[Fe@TD]' 60: [09:21:45] SMILES Parse Error: syntax error while parsing: c%()ccccc%() 60: [09:21:45] SMILES Parse Error: check for mistakes around position 4: 60: [09:21:45] c%()ccccc%() 60: [09:21:45] ~~~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'c%()ccccc%()' for input: 'c%()ccccc%()' 60: [09:21:45] SMARTS Parse Error: syntax error while parsing: c%()ccccc%() 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 4: 60: [09:21:45] c%()ccccc%() 60: [09:21:45] ~~~^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'c%()ccccc%()' for input: 'c%()ccccc%()' 60: [09:21:45] SMILES Parse Error: syntax error while parsing: c%(100000)ccccc%(100000) 60: [09:21:45] SMILES Parse Error: check for mistakes around position 9: 60: [09:21:45] c%(100000)ccccc%(100000) 60: [09:21:45] ~~~~~~~~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'c%(100000)ccccc%(100000)' for input: 'c%(100000)ccccc%(100000)' 60: [09:21:45] SMARTS Parse Error: syntax error while parsing: c%(100000)ccccc%(100000) 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 9: 60: [09:21:45] c%(100000)ccccc%(100000) 60: [09:21:45] ~~~~~~~~^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'c%(100000)ccccc%(100000)' for input: 'c%(100000)ccccc%(100000)' 60: [09:21:45] SMILES Parse Error: syntax error while parsing: COc(c1)cccc1C# 60: [09:21:45] SMILES Parse Error: check for mistakes around position 14: 60: [09:21:45] COc(c1)cccc1C# 60: [09:21:45] ~~~~~~~~~~~~~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 60: [09:21:45] SMARTS Parse Error: syntax error while parsing: COc(c1)cccc1C# 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 14: 60: [09:21:45] COc(c1)cccc1C# 60: [09:21:45] ~~~~~~~~~~~~~^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'COc(c1)cccc1C#' for input: 'COc(c1)cccc1C#' 60: [09:21:45] SMILES Parse Error: extra close parentheses while parsing: C) 60: [09:21:45] SMILES Parse Error: check for mistakes around position 2: 60: [09:21:45] C) 60: [09:21:45] ~^ 60: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'C)' for input: 'C)' 60: [09:21:45] SMARTS Parse Error: syntax error while parsing: C) 60: [09:21:45] SMARTS Parse Error: check for mistakes around position 2: 60: [09:21:45] C) 60: [09:21:45] ~^ 60: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'C)' for input: 'C)' 60: =============================================================================== 60: All tests passed (1695 assertions in 73 test cases) 60: 55/254 Test #60: smiTest1 ............................... Passed 0.10 sec test 61 Start 61: smiTest2 61: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smiTest2 61: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse 61: Test timeout computed to be: 7200 61: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'CO' for input: 'CO' 61: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'C-O' for input: 'C-O' 61: [09:21:45] SMILES Parse Error: syntax error while parsing: - 61: [09:21:45] SMILES Parse Error: check for mistakes around position 1: 61: [09:21:45] - 61: [09:21:45] ^ 61: [09:21:45] SMILES Parse Error: Failed parsing SMILES '-' for input: '-' 61: [09:21:45] SMILES Parse Error: Failed parsing SMILES '[Bg]' for input: '[Bg]' 61: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'C' for input: 'C' 61: [09:21:45] SMILES Parse Error: Failed parsing SMILES 'C-O' for input: 'C-O' 61: [09:21:45] SMILES Parse Error: Failed parsing SMILES '*' for input: '*' 61: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'CO' for input: 'CO' 61: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'C-O' for input: 'C-O' 61: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS '-' for input: '-' 61: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS '[Bg]' for input: '[Bg]' 61: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS 'C' for input: 'C' 61: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS '-O' for input: '-O' 61: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS '*' for input: '*' 56/254 Test #61: smiTest2 ............................... Passed 0.01 sec test 62 Start 62: cxsmilesTest 62: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/cxsmilesTest 62: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse 62: Test timeout computed to be: 7200 62: Randomness seeded to: 2738870738 62: Test 62: 62: ShortAtropisomerNoCoords.cxsmi 62: 62: Test 62: 62: ShortAtropisomer.cxsmi 62: 62: Test 62: 62: ShortAtropisomerArom.cxsmi 62: 62: Test 62: 62: AtropManyChirals.cxsmi 62: 62: Test 62: 62: AtropManyChiralsEnhanced.cxsmi 62: 62: Test 62: 62: AtropManyChiralsEnhanced2.cxsmi 62: 62: Test 62: 62: AtropManyChiralsEnhanced3.cxsmi 62: 62: Test 62: 62: AtropManyChiralsEnhanced4.cxsmi 62: 62: Test 62: 62: BMS-986142_3d_chiral.cxsmi 62: 62: Test 62: 62: BMS-986142_3d.cxsmi 62: 62: Test 62: 62: BMS-986142_atrop1.cxsmi 62: 62: Test 62: 62: BMS-986142_atrop2.cxsmi 62: 62: Test 62: 62: BMS-986142_atrop3.cxsmi 62: 62: Test 62: 62: BMS-986142_atrop4.cxsmi 62: 62: Test 62: 62: BMS-986142_atrop5.cxsmi 62: 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: Test 62: 62: BMS-986142_atrop6.cxsmi 62: 62: Test 62: 62: BMS-986142_atropBad1.cxsmi 62: 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 6 7 62: Test 62: 62: BMS-986142_atropBad2.cxsmi 62: 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 6 7 62: Test 62: 62: JDQ443_3d.cxsmi 62: 62: Test 62: 62: JDQ443_atrop1.cxsmi 62: 62: Test 62: 62: JDQ443_atrop2.cxsmi 62: 62: Test 62: 62: JDQ443_atrop3.cxsmi 62: 62: Test 62: 62: JDQ443_atrop4.cxsmi 62: 62: Test 62: 62: JDQ443_atropBad1.cxsmi 62: 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 3 62: Test 62: 62: RP-6306_atrop1.cxsmi 62: 62: Test 62: 62: RP-6306_atrop2.cxsmi 62: 62: Test 62: 62: RP-6306_atrop3.cxsmi 62: 62: Test 62: 62: RP-6306_atrop4.cxsmi 62: 62: Test 62: 62: RP-6306_atrop5.cxsmi 62: 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 62: Test 62: 62: RP-6306_atrop6.cxsmi 62: 62: Test 62: 62: RP-6306_atropBad1.cxsmi 62: 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 4 5 62: Test 62: 62: RP-6306_atropBad2.cxsmi 62: 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 4 5 62: Test 62: 62: RP-6306_3d.cxsmi 62: 62: Test 62: 62: Sotorasib_atrop1.cxsmi 62: 62: Test 62: 62: Sotorasib_atrop2.cxsmi 62: 62: Test 62: 62: Sotorasib_atrop3.cxsmi 62: 62: Test 62: 62: Sotorasib_atrop4.cxsmi 62: 62: Test 62: 62: Sotorasib_atrop5.cxsmi 62: 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 62: [09:21:45] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 13 ignored 62: Test 62: 62: Sotorasib_atropBad1.cxsmi 62: 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 13 14 62: Test 62: 62: Sotorasib_atropBad2.cxsmi 62: 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 62: [09:21:45] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 13 14 41: [09:21:45] Finished 41: [09:21:45] testing stability w.r.t. renumbering. 62: Test 62: 62: Sotorasib_3d.cxsmi 62: 62: Test 62: 62: ZM374979_atrop1.cxsmi 62: 62: Test 62: 62: ZM374979_atrop2.cxsmi 62: 62: Test 62: 62: ZM374979_atrop3.cxsmi 62: 62: Test 62: 62: ZM374979_atrop4.cxsmi 62: 62: Test 62: 62: ZM374979_atropBad1.cxsmi 62: 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 62: Test 62: 62: Mrtx1719_3d.cxsmi 62: 62: Test 62: 62: Mrtx1719_atrop1.cxsmi 62: 62: Test 62: 62: Mrtx1719_atrop2.cxsmi 62: 62: Test 62: 62: Mrtx1719_atrop3.cxsmi 62: 62: Test 62: 62: Mrtx1719_atrop4.cxsmi 62: 62: Test 62: 62: Mrtx1719_atropBad1.cxsmi 62: 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 62: [09:21:45] The 2 defining bonds for an atropisomer are co-planar - atoms are: 11 12 62: Test 62: 62: AtropCanon1.cxsmi 62: 62: Test 62: 62: AtropCanon2.cxsmi 62: 62: Test 62: 62: AtropCanon3.cxsmi 62: 62: Test 62: 62: BMS-986142_3d_chiral.cxsmi 62: 62: Test 62: 62: BMS-986142_3d.cxsmi 62: 62: [09:21:45] Atom 3 appears more than once in stereo group specification! 62: =============================================================================== 62: All tests passed (2525 assertions in 35 test cases) 62: 57/254 Test #62: cxsmilesTest ........................... Passed 0.51 sec test 63 Start 63: smaTest1 63: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smaTest1 63: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse 63: Test timeout computed to be: 7200 63: [09:21:45] SMARTS Parse Error: syntax error while parsing: [C:10H3]CC 63: [09:21:45] SMARTS Parse Error: check for mistakes around position 6: 63: [09:21:45] [C:10H3]CC 63: [09:21:45] ~~~~~^ 63: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS '[C:10H3]CC' for input: '[C:10H3]CC' 63: [09:21:45] SMARTS Parse Error: syntax error while parsing: [C:10:3]ON 63: [09:21:45] SMARTS Parse Error: check for mistakes around position 6: 63: [09:21:45] [C:10:3]ON 63: [09:21:45] ~~~~~^ 63: [09:21:45] SMARTS Parse Error: Failed parsing SMARTS '[C:10:3]ON' for input: '[C:10:3]ON' 63: [09:21:45] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 63: [09:21:45] WARNING: merging explicit H queries involved in ORs is not supported. This query will not be merged 63: Testing SMILES: O=C1C[C@]([H])1F [#8]=[#6]1-[#6]-[#6@H]-1-[#9] 63: Testing SMILES: Cl[C@@H]1CCC1=O [#17]-[#6@@H]1-[#6]-[#6]-[#6]-1=[#8] 63: Testing SMILES: N1CCN=C1[C@H]1CCCc2ccccc21 [#7]1-[#6]-[#6]-[#7]=[#6]-1-[#6@H]1-[#6]-[#6]-[#6]-[#6]2:[#6]:[#6]:[#6]:[#6]:[#6]:2-1 63: Testing SMILES: C[C@@H](Cl)[C@H]1CC[C@@H](Cl)CC1 [#6]-[#6@@H](-[#17])-[#6@H]1-[#6]-[#6]-[#6@@H](-[#17])-[#6]-[#6]-1 63: Testing SMILES: Fc1cn([C@@H]2CCCO2)c(=O)[nH]c1=O [#9]-[#6]1:[#6]:[#7](-[#6@@H]2-[#6]-[#6]-[#6]-[#8]-2):[#6](=[#8]):[#7]:[#6]:1=[#8] 63: Testing SMILES: [C@@]1(C)(C(C)(C)C)O[C@@H](CN)[C@H](C[NH3+])O1 [#6]-[#6@]1(-[#6](-[#6])(-[#6])-[#6])-[#8]-[#6@@H](-[#6]-[#7])-[#6@H](-[#6]-[#7+])-[#8]-1 63: Testing SMILES: O=C1C[C@](Cl)1F [#8]=[#6]1-[#6]-[#6@@]-1(-[#17])-[#9] 63: Testing SMILES: Br[C@@H](Cl)F [#35]-[#6@@H](-[#17])-[#9] 58/254 Test #63: smaTest1 ............................... Passed 0.06 sec test 64 Start 64: smiTestCatch 64: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 64: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse 64: Test timeout computed to be: 7200 64: Randomness seeded to: 523288982 64: [09:21:46] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 64: [09:21:46] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 64: [09:21:46] SMARTS Parse Error: unclosed ring for input: 'c1ccccc' 64: [09:21:46] SMARTS Parse Error: unclosed ring for input: 'C1C' 64: [09:21:46] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 64: [09:21:46] SMARTS Parse Error: syntax error while parsing: C)foo 64: [09:21:46] SMARTS Parse Error: check for mistakes around position 2: 64: [09:21:46] C)foo 64: [09:21:46] ~^ 64: [09:21:46] SMARTS Parse Error: Failed parsing SMARTS 'C)foo' for input: 'C)foo' 64: [09:21:46] SMARTS Parse Error: syntax error while parsing: CCC |$foo;;bar$| 64: [09:21:46] SMARTS Parse Error: check for mistakes around position 4: 64: [09:21:46] CCC |$foo;;bar$| 64: [09:21:46] ~~~^ 64: [09:21:46] SMARTS Parse Error: Failed parsing SMARTS 'CCC |$foo;;bar$|' for input: 'CCC |$foo;;bar$|' 64: [09:21:46] unrecognized CXSMILES CONNECT value: 'EU'. Assuming 'eu' 64: [09:21:46] w block attempts to set wedging on bond 0 more than once. 64: [09:21:46] improperly formatted w block 64: [09:21:46] atom 3 is not associated with bond 1(1-2) in w block 29: Checking against /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 29: All 191 tests passed 29: 29: Computing MMFF94 energies for /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/test_data/MMFF94_hypervalent.smi... 64: [09:21:47] SMARTS Parse Error: unclosed ring for input: 'C1.C2.C3.C4.C5' 64: [09:21:47] SMILES Parse Error: unclosed ring for input: 'C1.C2.C3.C4.C5' 64: [09:21:47] SMARTS Parse Error: syntax error while parsing: C1C)foo 64: [09:21:47] SMARTS Parse Error: check for mistakes around position 4: 64: [09:21:47] C1C)foo 64: [09:21:47] ~~~^ 64: [09:21:47] SMARTS Parse Error: Failed parsing SMARTS 'C1C)foo' for input: 'C1C)foo' 64: [09:21:47] SMILES Parse Error: extra close parentheses while parsing: C1C)foo 64: [09:21:47] SMILES Parse Error: check for mistakes around position 4: 64: [09:21:47] C1C)foo 64: [09:21:47] ~~~^ 64: [09:21:47] SMILES Parse Error: Failed parsing SMILES 'C1C)foo' for input: 'C1C)foo' 64: [09:21:47] 64: 64: **** 64: Pre-condition Violation 64: rootedAtAtom must be less than the number of atoms 64: Violation occurred on line 498 in file ./Code/GraphMol/SmilesParse/SmilesWrite.cpp 64: Failed Expression: params.rootedAtAtom < 0 || static_cast(params.rootedAtAtom) < mol.getNumAtoms() 64: ---------- 64: Stacktrace: 64: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 64: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 64: 2# RDKit::SmilesWrite::detail::MolToSmiles[abi:cxx11](RDKit::ROMol const&, RDKit::SmilesWriteParams const&, bool, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSmilesParse.so.1 64: 3# RDKit::MolToSmiles[abi:cxx11](RDKit::ROMol const&, RDKit::SmilesWriteParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSmilesParse.so.1 64: 4# 0x000000000004C372 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 64: 5# 0x00000000000E173C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 64: 6# 0x00000000000E2D32 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 64: 7# 0x00000000000E319A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 64: 8# 0x00000000000B5791 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 64: 9# 0x00000000000B5A8C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 64: 10# 0x0000000000044F6E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 64: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 64: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 64: 13# 0x0000000000044FB1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smiTestCatch 64: ---------- 64: **** 64: 64: [09:21:47] SMILES Parse Error: syntax error while parsing: CClâ‚‚O 64: [09:21:47] SMILES Parse Error: check for mistakes around position 4: 64: [09:21:47] CClâ‚‚O 64: [09:21:47] ~~~^ 64: [09:21:47] SMILES Parse Error: Failed parsing SMILES 'CClâ‚‚O' for input: 'CClâ‚‚O' 64: [09:21:47] SMARTS Parse Error: syntax error while parsing: CClâ‚‚O 64: [09:21:47] SMARTS Parse Error: check for mistakes around position 4: 64: [09:21:47] CClâ‚‚O 64: [09:21:47] ~~~^ 64: [09:21:47] SMARTS Parse Error: Failed parsing SMARTS 'CClâ‚‚O' for input: 'CClâ‚‚O' 64: [09:21:47] SMILES Parse Error: syntax error while parsing: CClâ‚‚OZrâ‚‚CClO 64: [09:21:47] SMILES Parse Error: check for mistakes around position 4: 64: [09:21:47] CClâ‚‚OZrâ‚‚CClO 64: [09:21:47] ~~~^ 64: [09:21:47] SMILES Parse Error: Failed parsing SMILES 'CClâ‚‚OZrâ‚‚CClO' for input: 'CClâ‚‚OZrâ‚‚CClO' 64: [09:21:47] SMARTS Parse Error: syntax error while parsing: CClâ‚‚OZrâ‚‚CClO 64: [09:21:47] SMARTS Parse Error: check for mistakes around position 4: 64: [09:21:47] CClâ‚‚OZrâ‚‚CClO 64: [09:21:47] ~~~^ 64: [09:21:47] SMARTS Parse Error: Failed parsing SMARTS 'CClâ‚‚OZrâ‚‚CClO' for input: 'CClâ‚‚OZrâ‚‚CClO' 64: [09:21:47] SMILES Parse Error: chiral permutation cannot be zero while parsing: C[As@TB0](F)(Cl)(O)Br 64: [09:21:47] SMILES Parse Error: check for mistakes around position 8: 64: [09:21:47] C[As@TB0](F)(Cl)(O)Br 64: [09:21:47] ~~~~~~~^ 64: [09:21:47] SMILES Parse Error: Failed parsing SMILES 'C[As@TB0](F)(Cl)(O)Br' for input: 'C[As@TB0](F)(Cl)(O)Br' 64: [09:21:47] SMARTS Parse Error: chiral permutation cannot be zero while parsing: C[As@TB0](F)(Cl)(O)Br 64: [09:21:47] SMARTS Parse Error: check for mistakes around position 8: 64: [09:21:47] C[As@TB0](F)(Cl)(O)Br 64: [09:21:47] ~~~~~~~^ 64: [09:21:47] SMARTS Parse Error: Failed parsing SMARTS 'C[As@TB0](F)(Cl)(O)Br' for input: 'C[As@TB0](F)(Cl)(O)Br' 64: =============================================================================== 64: All tests passed (1863 assertions in 79 test cases) 64: 59/254 Test #64: smiTestCatch ........................... Passed 1.12 sec test 65 Start 65: nontetrahedralCatch 65: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/nontetrahedralCatch 65: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse 65: Test timeout computed to be: 7200 65: Randomness seeded to: 965895708 65: [09:21:47] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 65: [09:21:47] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 65: [09:21:47] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 65: [09:21:47] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 65: [09:21:47] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 65: [09:21:47] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 65: [09:21:47] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 65: [09:21:47] WARNING: not removing hydrogen atom with neighbor that has non-tetrahedral stereochemistry 65: [09:21:47] ignoring non-tetrahedral stereo specification since setAllowNontetrahedralChirality() is false. 65: =============================================================================== 65: All tests passed (308 assertions in 9 test cases) 65: 60/254 Test #65: nontetrahedralCatch .................... Passed 0.03 sec test 66 Start 66: v2smiTestCatch 66: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/v2smiTestCatch 66: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse 66: Test timeout computed to be: 7200 66: Randomness seeded to: 3376141093 66: =============================================================================== 66: All tests passed (14 assertions in 2 test cases) 66: 61/254 Test #66: v2smiTestCatch ......................... Passed 0.01 sec test 67 Start 67: smartsTestCatch 67: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/smartsTestCatch 67: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse 67: Test timeout computed to be: 7200 67: Randomness seeded to: 289469623 67: =============================================================================== 67: All tests passed (234 assertions in 4 test cases) 67: 62/254 Test #67: smartsTestCatch ........................ Passed 0.02 sec test 68 Start 68: testDepictor 68: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor/testDepictor 68: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor 68: Test timeout computed to be: 7200 68: [09:21:47] *********************************************************** 68: [09:21:47] test1 68: [09:21:47] *********************************************************** 68: 68: [09:21:47] *********************************************************** 68: [09:21:47] testCollisions 68: [09:21:47] *********************************************************** 68: 68: [09:21:47] *********************************************************** 68: [09:21:47] testAddHs 68: [09:21:47] *********************************************************** 68: 68: [09:21:47] *********************************************************** 68: [09:21:47] test198 68: [09:21:47] *********************************************************** 68: 68: [09:21:47] *********************************************************** 68: [09:21:47] test2 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] test3 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] test4 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] tempTest 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Issue248 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test Queries 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test crashes associated with RemoveHs 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test Issue 2091304 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test Issue 2821647 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test Issue 2948402 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test Issue 2995724 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Testing a change of the depictor bond length 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test Issue 3122141 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test Issue 3135833 68: [09:21:47] Warning: stereochemistry around double bond may be incorrect in depiction. 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test Issue 3487469 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test GitHub Issue 8 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test GitHub Issue 78 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test GitHub Issue 910 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test GitHub Issue 1073 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] testConstrainedCoords 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test GitHub Issue 1112: Bad coordinate generation for H2 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test Issue 2303566 68: [09:21:47] *********************************************************** 68: [09:21:47] *********************************************************** 68: [09:21:47] Test GitHub Issue 1286: GenerateDepictionMatching2DStructure isn't matching 2D structure 68: [09:21:47] *********************************************************** 68: [09:21:47] ----------------------- 68: Testing Github issue 1691: Acetylenic hydrogens not given appropriate 2D coordinates 68: [09:21:47] Finished 68: [09:21:47] ----------------------- 68: Testing Github issue 2027: "linear" fragments not canonically oriented 68: [09:21:47] Finished 68: [09:21:47] ----------------------- 68: Test generateDepictionMatching2DStructure with refPattern and matchVect 68: [09:21:47] Finished 68: [09:21:47] ----------------------- 68: Test generateDepictionMatching2DStructure with allowRGroups 68: [09:21:47] Finished 68: [09:21:47] ----------------------- 68: Test generateDepictionMatching2DStructure with allowRGroups 68: [09:21:47] Finished 68: [09:21:47] ----------------------- 68: Test normalize and straighten depiction 68: [09:21:47] Finished 68: [09:21:47] ----------------------- 68: Test that ring system templates are valid 68: [09:21:47] Finished 63/254 Test #68: testDepictor ........................... Passed 0.27 sec test 69 Start 69: depictorCatch 69: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor/depictorCatch 69: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor 69: Test timeout computed to be: 7200 69: Randomness seeded to: 1496944432 69: =============================================================================== 69: All tests passed (1209 assertions in 21 test cases) 69: 64/254 Test #69: depictorCatch .......................... Passed 0.14 sec test 70 Start 70: pyDepictor 70: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Depictor/Wrap/testDepictor.py" 70: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Depictor/Wrap 70: Test timeout computed to be: 7200 70: ...............[09:21:47] SMARTS Parse Error: syntax error while parsing: invalidsmiles 70: [09:21:47] SMARTS Parse Error: check for mistakes around position 1: 70: [09:21:47] invalidsmiles 70: [09:21:47] ^ 70: [09:21:47] SMARTS Parse Error: Failed parsing SMARTS 'invalidsmiles' for input: 'invalidsmiles' 70: ..... 70: ---------------------------------------------------------------------- 70: Ran 20 tests in 0.397s 70: 70: OK 65/254 Test #70: pyDepictor ............................. Passed 0.60 sec test 71 Start 71: testMrvToMol 71: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 71: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse 71: Test timeout computed to be: 7200 71: Using new chirality perception 71: Test 71: 71: rxnStereoMarkedCrossed.mrv 71: 71: Test 71: 71: 145323811.mol 71: 71: [09:21:48] unsupported number of radical electrons 5 71: Test 71: 71: NewChiralTest.sdf 71: 71: Test 71: 71: NewChiralTest.sdf 71: 71: Test 71: 71: NewChiralTestNoChiral.sdf 71: 71: Test 71: 71: NewChiralTestNoChiral.sdf 71: 71: Test 71: 71: NewChiralTestAllChiral.sdf 71: 71: Test 71: 71: NewChiralTestAllChiral.sdf 71: 71: Test 71: 71: vendor839.sdf 71: 71: Test 71: 71: ProblemShort.mol 71: 71: [09:21:48] For a MultipleSgroup expansion, the matching orphaned bond was not found 71: The multiple sgroup will be ignored 71: Test 71: 71: badWedgeError.sdf 71: 71: Test 71: 71: CrossedDoubleBondWithChiralNbr2.sdf 71: 71: Test 71: 71: CrossedDoubleBondWithChiralNbr.sdf 71: 71: Test 71: 71: SimpleWiggleDoubleBond.sdf 71: 71: Test 71: 71: lostStereoAnd.sdf 71: 71: Test 71: 71: DoubleBondChain.sdf 71: 71: Test 71: 71: UnitsError.sdf 71: 71: Test 71: 71: StarAtom.sdf 71: 71: Test 71: 71: nonProprietary.mol 71: 71: Test 71: 71: ChiralTest.sdf 71: 71: Test 71: 71: TestBond1.mol 71: 71: Test 71: 71: Sgroup_MUL_ParentInMiddle.sdf 71: 71: Test 71: 71: BadRxn.rxn 71: 71: Test 71: 71: FalseChiral.mrv 71: 71: Test 71: 71: FalseChiral.mrv 71: 71: Test 71: 71: Cubane.mrv 71: 71: Test 71: 71: NewChiralTest.mrv 71: 71: Test 71: 71: NewChiralTest.mrv 71: 71: Test 71: 71: NewChiralTestNoChiral.mrv 71: 71: Test 71: 71: NewChiralTestNoChiral.mrv 71: 71: Test 71: 71: NewChiralTestAllChiral.mrv 71: 71: Test 71: 71: NewChiralTestAllChiral.mrv 71: 71: Test 71: 71: DataSgroupMissingUnitsDisplayed.mrv 71: 71: Test 71: 71: lostStereoAnd.mrv 71: 71: Test 71: 71: DoubleBondChain.mrv 71: 71: Test 71: 71: WigglyAndCrossed.mrv 71: 71: Test 71: 71: BondTypes.mrv 71: 71: Test 71: 71: EmbeddedSGroupSUP_MUL.mrv 71: 71: Test 71: 71: EmbeddedSgroupCOP_SUP.mrv 71: 71: Test 71: 71: EmbeddedSgroupDAT_SUP.mrv 71: 71: Test 71: 71: EmbeddedSgroupMULTICENTER_SUP.mrv 71: 71: Test 71: 71: EmbeddedSgroupMUL_MUL.mrv 71: 71: Test 71: 71: EmbeddedSgroupMUL_MUL2.mrv 71: 71: Test 71: 71: EmbeddedSgroupMUL_SUP.mrv 71: 71: Test 71: 71: EmbeddedSgroupSRU_SUP.mrv 71: 71: Test 71: 71: EmbeddedSgroupSUPEXP_SUP.mrv 71: 71: Test 71: 71: EmbeddedSgroupSUPEXP_SUP2.mrv 71: 71: Test 71: 71: EmbeddedSgroupSUP_MULTICENTER.mrv 71: 71: Test 71: 71: EmbeddedSgroupSUP_SUP.mrv 71: 71: Test 71: 71: EmbeddedSgroupSUP_SUP2.mrv 71: 71: Test 71: 71: RgroupBad.mrv 71: 71: Test 71: 71: valenceLessThanDrawn.mrv 71: 71: Test 71: 71: data_sgroup_no_fieldname.mrv 71: 71: Test 71: 71: data_sgroup_empty_field_data.mrv 71: 71: Test 71: 71: radical_value.mrv 71: 71: Test 71: 71: emptyOneLineAtomList.mrv 71: 71: Test 71: 71: mrvValence_value.mrv 71: 71: Test 71: 71: ChiralTest2.mrv 71: 71: Test 71: 71: ChiralTest.mrv 71: 71: Test 71: 71: SnCl2.mrv 71: 71: Test 71: 71: SnH2Cl2.mrv 71: 71: Test 71: 71: marvin01.mrv 71: 71: Test 71: 71: marvin02.mrv 71: 71: Test 71: 71: marvin07.mrv 71: 71: Test 71: 71: marvin10.mrv 71: 71: Test 71: 71: marvin06.mrv 71: 71: Test 71: 71: marvin12.mrv 71: 71: Test 71: 71: EmptyMol.mrv 71: 71: Test 71: 71: Sparse.mrv 71: 71: Test 71: 71: Sparse2.mrv 71: 71: Test 71: 71: Sparse3.mrv 71: 71: Test 71: 71: MarvinNoCoords.mrv 71: 71: Test 71: 71: aspirin.mrv 71: 71: Test 71: 71: MarvinStereoGroupsZeros.mrv 71: 71: Test 71: 71: MarvinStereoGroupsAbs.mrv 71: 71: Test 71: 71: triphenylphosphine.mrv 71: 71: Test 71: 71: MarvinOldSuperGroupTest.mrv 71: 71: Test 71: 71: RadicalTests.mrv 71: 71: Test 71: 71: AnyBond.mrv 71: 71: Test 71: 71: cisBenzene.mrv 71: 71: Test 71: 71: DativeBond.mrv 71: 71: Test 71: 71: MultipleSgroup.mrv 71: 71: Test 71: 71: SgroupExpanded.mrv 71: 71: Test 71: 71: SgroupMultAttach.mrv 71: 71: Test 71: 71: MarvinMissingX2.mrv 71: 71: Test 71: 71: MarvinMissingY2.mrv 71: 71: Test 71: 71: DataSgroup.mrv 71: 71: Test 71: 71: MulticenterSgroup.mrv 71: 71: [09:21:48] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 71: [09:21:48] Can't kekulize mol. Unkekulized atoms: 6 7 8 9 10 71: Test 71: 71: GenericSgroup.mrv 71: 71: Test 71: 71: MonomerSgroup.mrv 71: 71: Test 71: 71: modification_sgroup.mrv 71: 71: Test 71: 71: copolymer_sgroup.mrv 71: 71: Test 71: 71: MultipleSgroupParentInMiddleOfAtomBlock.mrv 71: 71: Test 71: 71: EmbeddedSgroups.mrv 71: 71: Test 71: 71: marvin03.mrv 71: 71: Test 71: 71: MarvinBadMissingMolID.mrv 71: 71: [09:21:48] 71: 71: **** 71: Test Assert 71: Expression Failed: 71: Violation occurred on line 353 in file ./Code/GraphMol/MarvinParse/testMrvToMol.cpp 71: Failed Expression: GetExpectedValue(expectedMrvName) == outMolStr 71: ---------- 71: Stacktrace: 71: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 71: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 71: 2# 0x00000000000169EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 71: 3# 0x0000000000026333 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 71: 4# 0x0000000000007DBE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 71: 5# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 71: 6# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 71: 7# 0x0000000000007F91 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MarvinParse/testMrvToMol 71: ---------- 71: **** 71: 71: Test 71: 71: MarvinBadMissingAtomID.mrv 71: 71: Expected id, elementType for an atom definition in MRV file 71: Test 71: 71: MarvinBadX2.mrv 71: 71: The values x2 and y2 must be large floats in MRV file 71: Test 71: 71: MarvinBadY2.mrv 71: 71: The values x2 and y2 must be large floats in MRV file 71: Test 71: 71: MarvinBadStereoGroupsAbs.mrv 71: 71: Unrecognized group definition 71: Test 71: 71: MarvinBadElementType.mrv 71: 71: Test 71: 71: MarvinBadMissingBondID.mrv 71: 71: Test 71: 71: MarvinBadMissingBondAtomRefs 71: 71: Test 71: 71: MarvinBadMissingBondOrder.mrv 71: 71: bond must have one of: order, queryType, or convention in MRV File 71: Test 71: 71: MarvinBadMissingSruMolID.mrv 71: 71: Expected a molID in MRV file 71: Test 71: 71: MarvinBadMissingSruID.mrv 71: 71: Test 71: 71: MarvinBadMissingSruRole.mrv 71: 71: Test 71: 71: MarvinBadMissingSruAtomRef.mrv 71: 71: Test 71: 71: MarvinBadMissingSruTitle.mrv 71: 71: Test 71: 71: MarvinBadSruAtomRef.mrv 71: 71: AtomRef specification for an SRU, Copolymer, or Modification group definition was not found in any parent 71: Test 71: 71: MarvinBadSruID.mrv 71: 71: Test 71: 71: MarvinBadSruRole.mrv 71: 71: Test 71: 71: MarvinBadSruAtomRef.mrv 71: 71: AtomRef specification for an SRU, Copolymer, or Modification group definition was not found in any parent 71: Test 71: 71: MarvinBadSruAtomRef.mrv 71: 71: AtomRef specification for an SRU, Copolymer, or Modification group definition was not found in any parent 71: Test 71: 71: MarvinBadSruConnect.mrv 71: 71: Expected a connect string of "hh, ht, eu" for a SruSgroup definition in MRV file 71: Test 71: 71: MarvinBadSupAttachAtom.mrv 71: 71: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 71: Test 71: 71: MarvinBadSupAttachBond.mrv 71: 71: Bond specification for an AttachmentPoint definition must be in the bond array in MRV file 71: Test 71: 71: MarvinBadSupAttachOrder.mrv 71: 71: Order for an AttachmentPoint definition must be an integer in MRV file 71: Test 71: 71: MarvinBadSupAttachAtom.mrv 71: 71: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 71: Test 71: 71: MarvinBadSupAttachAtom.mrv 71: 71: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 71: Test 71: 71: MarvinBadSupAttachAtom.mrv 71: 71: Atom specification for an AttachmentPoint definition must be in the parent's atom array in MRV file 71: Test 71: 71: MarvinBadSupMissingAttachBond.mrv 71: 71: No attachment point found for bond to the condensed atom in a superatomSgroup 71: Test 71: 71: MarvinBadSupMissingAttachOrder.mrv 71: 71: Expected atom, order and bond, for an AttachmentPoint definition in MRV file 29: Checking against /build/reproducible-path/rdkit-202603.2/Code/ForceField/MMFF/test_data/MMFF94_reference.log... 71: Test 71: 71: marvin03.mrv 71: 71: Test 71: 71: Cubane.mrv 71: 71: Test 71: 71: FalseAtropisomer.mrv 71: 71: Test 71: 71: AtropEnhancedStereo.mrv 71: 71: Test 71: 71: AtropManyChirals.mrv 71: 71: Test 71: 71: AtropManyChiralsEnhanced.mrv 71: 71: Test 71: 71: AtropManyChiralsEnhanced2.mrv 71: 71: Test 71: 71: AtropManyChiralsEnhanced3.mrv 71: 71: Test 71: 71: AtropManyChiralsEnhanced4.mrv 71: 71: Test 71: 71: BMS-986142_3d_chiral.mrv 71: 71: Test 71: 71: BMS-986142_3d.mrv 71: 71: Test 71: 71: BMS-986142_atrop1.mrv 71: 71: Test 71: 71: BMS-986142_atrop2.mrv 71: 71: Test 71: 71: BMS-986142_atrop3.mrv 71: 71: Test 71: 71: BMS-986142_atrop4.mrv 71: 71: Test 71: 71: BMS-986142_atrop5.mrv 71: 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: Test 71: 71: BMS-986142_atrop6.mrv 71: 71: Test 71: 71: BMS-986142_atrop7.mrv 71: 71: Test 71: 71: BMS-986142_atrop8.mrv 71: 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: Test 71: 71: BMS-986142_atropBad2.mrv 71: 71: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 71: Test 71: 71: JDQ443_3d.mrv 71: 71: Test 71: 71: JDQ443_atrop1.mrv 71: 71: Test 71: 71: JDQ443_atrop2.mrv 71: 71: Test 71: 71: JDQ443_atrop3.mrv 71: 71: Test 71: 71: JDQ443_atropBad1.mrv 71: 71: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 71: Test 71: 71: RP-6306_atrop1.mrv 71: 71: Test 71: 71: RP-6306_atrop2.mrv 71: 71: Test 71: 71: RP-6306_atrop3.mrv 71: 71: Test 71: 71: RP-6306_atrop4.mrv 71: 71: Test 71: 71: RP-6306_atrop5.mrv 71: 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: Test 71: 71: RP-6306_atropBad1.mrv 71: 71: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 71: Test 71: 71: RP-6306_atropBad2.mrv 71: 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 71: Test 71: 71: RP-6306_3d.mrv 71: 71: Test 71: 71: Sotorasib_atrop1.mrv 71: 71: Test 71: 71: Sotorasib_atrop2.mrv 71: 71: Test 71: 71: Sotorasib_atrop3.mrv 71: 71: Test 71: 71: Sotorasib_atrop4.mrv 71: 71: Test 71: 71: Sotorasib_atrop5.mrv 71: 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: Test 71: 71: Sotorasib_atropBad1.mrv 71: 71: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 71: Test 71: 71: Sotorasib_atropBad2.mrv 71: 71: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 71: Test 71: 71: Sotorasib_3d.mrv 71: 71: Test 71: 71: ZM374979_atrop1.mrv 71: 71: Test 71: 71: ZM374979_atrop2.mrv 71: 71: Test 71: 71: ZM374979_atrop3.mrv 71: 71: Test 71: 71: ZM374979_atropBad1.mrv 71: 71: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 71: Test 71: 71: mrtx1719_3d.mrv 71: 71: Test 71: 71: mrtx1719_atrop1.mrv 71: 71: Test 71: 71: mrtx1719_atrop2.mrv 71: 71: Test 71: 71: mrtx1719_atrop3.mrv 71: 71: Test 71: 71: mrtx1719_atropBad1.mrv 71: 71: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 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. 71: Test 71: 71: FalseAtropisomer.mrv 71: 71: Test 71: 71: AtropEnhancedStereo.mrv 71: 71: Test 71: 71: AtropManyChirals.mrv 71: 71: Test 71: 71: AtropManyChiralsEnhanced.mrv 71: 71: Test 71: 71: AtropManyChiralsEnhanced2.mrv 71: 71: Test 71: 71: AtropManyChiralsEnhanced3.mrv 71: 71: Test 71: 71: AtropManyChiralsEnhanced4.mrv 71: 71: Test 71: 71: BMS-986142_3d_chiral.mrv 71: 71: Test 71: 71: BMS-986142_3d.mrv 71: 71: Test 71: 71: BMS-986142_atrop1.mrv 71: 71: Test 71: 71: BMS-986142_atrop2.mrv 71: 71: Test 71: 71: BMS-986142_atrop3.mrv 71: 71: Test 71: 71: BMS-986142_atrop4.mrv 71: 71: Test 71: 71: BMS-986142_atrop5.mrv 71: 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 29: done 29: ------------------------------------- 29: Unit test for MMFF butane scan. 71: Test 71: 71: BMS-986142_atrop6.mrv 71: 71: Test 71: 71: BMS-986142_atrop7.mrv 71: 71: Test 71: 71: BMS-986142_atrop8.mrv 71: 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: Test 71: 71: BMS-986142_atropBad2.mrv 71: 71: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 71: Test 71: 71: JDQ443_3d.mrv 71: 71: Test 71: 71: JDQ443_atrop1.mrv 71: 71: Test 71: 71: JDQ443_atrop2.mrv 71: 71: Test 71: 71: JDQ443_atrop3.mrv 71: 71: Test 71: 71: JDQ443_atropBad1.mrv 71: 71: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 71: Test 71: 71: RP-6306_atrop1.mrv 71: 71: Test 71: 71: RP-6306_atrop2.mrv 71: 71: Test 71: 71: RP-6306_atrop3.mrv 71: 71: Test 71: 71: RP-6306_atrop4.mrv 71: 71: Test 71: 71: RP-6306_atrop5.mrv 71: 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: Test 71: 71: RP-6306_atropBad1.mrv 71: 71: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 71: Test 71: 71: RP-6306_atropBad2.mrv 71: 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 71: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 71: Test 71: 71: RP-6306_3d.mrv 71: 71: Test 71: 71: Sotorasib_atrop1.mrv 71: 71: Test 71: 71: Sotorasib_atrop2.mrv 71: 71: Test 71: 71: Sotorasib_atrop3.mrv 71: 71: Test 71: 71: Sotorasib_atrop4.mrv 71: 71: Test 71: 71: Sotorasib_atrop5.mrv 71: 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 71: Test 71: 71: Sotorasib_atropBad1.mrv 71: 71: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 71: Test 71: 71: Sotorasib_atropBad2.mrv 71: 71: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 71: Test 71: 71: Sotorasib_3d.mrv 71: 71: Test 71: 71: ZM374979_atrop1.mrv 71: 71: Test 71: 71: ZM374979_atrop2.mrv 71: 71: Test 71: 71: ZM374979_atrop3.mrv 71: 71: Test 71: 71: ZM374979_atropBad1.mrv 71: 71: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 71: Test 71: 71: mrtx1719_3d.mrv 71: 71: Test 71: 71: mrtx1719_atrop1.mrv 71: 71: Test 71: 71: mrtx1719_atrop2.mrv 71: 71: Test 71: 71: mrtx1719_atrop3.mrv 71: 71: Test 71: 71: mrtx1719_atropBad1.mrv 71: 71: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 71: Test 71: 71: AlexRxn.mrv 71: 71: Test 71: 71: BadReactionSign.mrv 71: 71: Test 71: 71: bondArray_node.mrv 71: 71: Test 71: 71: marvin03.mrv 71: 71: Test 71: 71: marvin04.mrv 71: 71: Test 71: 71: marvin08.mrv 71: 71: Test 71: 71: marvin09.mrv 71: 71: Test 71: 71: marvin11.mrv 71: 71: Test 71: 71: marvin05.mrv 71: 71: Test 71: 71: EmptyRxn.mrv 71: 71: [09:21:48] initialization failed 71: Test 71: 71: RxnNoCoords.mrv 71: 71: Test 71: 71: mrvValenceZero.mrv 71: 71: Test 71: 71: condition_coordinates_mpoint.mrv 71: 71: Test 71: 71: marvin01.mrv 71: 71: Test 71: 71: aspirineSynthesisWithAttributes.mrv 71: 71: Test 71: 71: marvin01.mrv 71: 71: Test 71: 71: NewChiralTest 71: 71: Test 71: 71: NewChiralTest 71: 71: Test 71: 71: NewChiralTestNoChiral 71: 71: Test 71: 71: NewChiralTestNoChiral 71: 71: Test 71: 71: NewChiralTest2 71: 71: Test 71: 71: NewChiralTest2 71: 71: Test 71: 71: NewChiralTest2AllChiral 71: 71: Test 71: 71: NewChiralTest2AllChiral 71: 71: Test 71: 71: Vendor839 71: 71: Test 71: 71: DoubleBondChain 71: 71: Test 71: 71: Na_Mg_Al_OH 71: 71: Test 71: 71: Pb 71: 71: Test 71: 71: O_Mg_Si 71: 71: Test 71: 71: SquiggleBond 71: 71: Test 71: 71: BigMacrocycle 71: 71: Test 71: 71: Smiles1 71: 66/254 Test #71: testMrvToMol ........................... Passed 0.52 sec test 72 Start 72: fileParsersTest1 72: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 72: Test timeout computed to be: 7200 72: *************************************** 72: *************************************** 72: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [09:21:48] bond with order 0 found on line 7. This is not part of the MDL specification. 29: done 67/254 Test #29: testMMFFForceField ..................... Passed 5.86 sec test 73 Start 73: testAtropisomers 73: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/testAtropisomers 73: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 73: Test timeout computed to be: 7200 72: [09:21:48] Skipping unrecognized collection type at line 26: MDLV30/HILITE BONDS=(1 7) 72: [09:21:48] Skipping unrecognized collection type at line 27: MDLV30/HILITE ATOMS=(1 7) 72: [09:21:48] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 72: generating smiles 72: 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 72: converting back 72: check isomorphism 73: [09:21:48] ---- Running with POSIX locale ----- 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 73: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 73: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 29 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 73: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 73: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 73: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 2 8 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 2 ignored 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 2 8 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 7 20 73: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 73: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 73: [09:21:48] The bonds on one end of an atropisomer are both UP or both DOWN - atoms are: 7 20 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 0 31 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 73: [09:21:48] The 2 defining bonds for an atropisomer are co-planar - atoms are: 15 16 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: [09:21:48] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 73: Atropisomers- 1 hits 3 misses 73: Final results: 73: Found atropisomers in TestMultInSDF.sdf - 1 hits 4 misses 68/254 Test #73: testAtropisomers ....................... Passed 0.12 sec test 74 Start 74: testSquiggleDoubleBonds 74: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/testSquiggleDoubleBonds 74: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 74: Test timeout computed to be: 7200 74: Randomness seeded to: 2981668300 74: =============================================================================== 74: All tests passed (15 assertions in 3 test cases) 74: 69/254 Test #74: testSquiggleDoubleBonds ................ Passed 0.02 sec test 75 Start 75: testMolSupplier 75: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/testMolSupplier 75: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 75: Test timeout computed to be: 7200 75: Randomness seeded to: 3308546335 75: [09:21:48] Ignoring invalid chirality label: '2_bad_chirality' 75: [09:21:48] Ignoring invalid chirality label: '2_bad_chirality' 75: [09:21:48] SMILES Parse Error: syntax error while parsing: fail 75: [09:21:48] SMILES Parse Error: check for mistakes around position 1: 75: [09:21:48] fail 75: [09:21:48] ^ 75: [09:21:48] SMILES Parse Error: Failed parsing SMILES 'fail' for input: 'fail' 75: [09:21:48] ERROR: Smiles parse error on line 3 75: [09:21:48] ERROR: Cannot create molecule from : 'fail' 75: [09:21:49] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 75: [09:21:49] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 75: [09:21:49] ERROR: Problems encountered parsing data fields 75: [09:21:49] ERROR: moving to the beginning of the next molecule 75: [09:21:49] ERROR: Problems encountered parsing data fields 75: [09:21:49] ERROR: moving to the beginning of the next molecule 75: [09:21:49] Spurious data before the first property will be ignored 75: [09:21:49] Property will be truncated after the first blank line 75: [09:21:49] Property will be truncated after the first blank line 75: [09:21:49] Property will be truncated after the first blank line 75: [09:21:49] ERROR: Problems encountered parsing data fields 75: [09:21:49] ERROR: moving to the beginning of the next molecule 75: [09:21:49] Property will be truncated after the first blank line 75: [09:21:49] ERROR: Problems encountered parsing data fields 75: [09:21:49] ERROR: moving to the beginning of the next molecule 75: [09:21:49] ERROR: Problems encountered parsing data fields 75: [09:21:49] ERROR: moving to the beginning of the next molecule 75: [09:21:49] Spurious data before the first property will be ignored 75: [09:21:49] Property will be truncated after the first blank line 75: [09:21:49] Property will be truncated after the first blank line 75: [09:21:49] Property will be truncated after the first blank line 75: [09:21:49] ERROR: Problems encountered parsing data fields 75: [09:21:49] ERROR: moving to the beginning of the next molecule 75: [09:21:49] Property will be truncated after the first blank line 75: [09:21:49] ERROR: End of data field name not found 75: [09:21:49] ERROR: moving to the beginning of the next molecule 75: [09:21:49] Explicit valence for atom # 0 F, 2, is greater than permitted 75: [09:21:49] ERROR: Could not sanitize molecule ending on line 16 75: [09:21:49] ERROR: Explicit valence for atom # 0 F, 2, is greater than permitted 75: [09:21:49] ERROR: Atom line too short: ' 1 2 1 0 0 0 0' on line 12 75: [09:21:49] ERROR: moving to the beginning of the next molecule 75: [09:21:49] ERROR: Bond line too short: 'M END' on line 18 75: [09:21:49] ERROR: moving to the beginning of the next molecule 75: build: 75: [09:21:49] ERROR: Cannot convert 'foo' to unsigned int on line 557 75: [09:21:49] ERROR: moving to the beginning of the next molecule 75: [09:21:49] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 75: [09:21:49] ERROR: Smiles parse error on line 1 75: [09:21:49] ERROR: Cannot create molecule from : 'c1ccccc' 75: [09:21:49] SMILES Parse Error: extra open parentheses while parsing: C(C 75: [09:21:49] SMILES Parse Error: check for mistakes around position 2: 75: [09:21:49] C(C 75: [09:21:49] ~^ 75: [09:21:49] SMILES Parse Error: Failed parsing SMILES 'C(C' for input: 'C(C' 75: [09:21:49] ERROR: Smiles parse error on line 3 75: [09:21:49] ERROR: Cannot create molecule from : 'C(C' 75: [09:21:49] Explicit valence for atom # 1 C, 5, is greater than permitted 75: [09:21:49] ERROR: Could not sanitize molecule on line 5 75: [09:21:49] ERROR: Explicit valence for atom # 1 C, 5, is greater than permitted 75: [09:21:49] Explicit valence for atom # 1 F, 2, is greater than permitted 75: [09:21:49] ERROR: Could not sanitize molecule ending on line 21 75: [09:21:49] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 75: [09:21:49] Explicit valence for atom # 1 F, 2, is greater than permitted 75: [09:21:49] ERROR: Could not sanitize molecule ending on line 21 75: [09:21:49] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 75: [09:21:49] Explicit valence for atom # 1 F, 2, is greater than permitted 75: [09:21:49] ERROR: Could not sanitize molecule ending on line 21 75: [09:21:49] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 75: [09:21:49] ERROR: Atom line too short: ' -9.6' on line 28 75: [09:21:49] ERROR: moving to the beginning of the next molecule 75: [09:21:49] Explicit valence for atom # 1 F, 2, is greater than permitted 75: [09:21:49] ERROR: Could not sanitize molecule ending on line 21 75: [09:21:49] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 75: [09:21:49] ERROR: Atom line too short: ' -9.6' on line 28 75: [09:21:49] ERROR: moving to the beginning of the next molecule 75: [09:21:49] Ignoring invalid chirality label: '7_S_8_9_6_10' 75: [09:21:49] BEGIN SGROUP found but Sgroups NOT expected on line 26 75: [09:21:49] Found 1 SGroups when 0 were expected. 75: 75: =============================================================================== 75: All tests passed (1393 assertions in 41 test cases) 75: 70/254 Test #75: testMolSupplier ........................ Passed 0.15 sec test 76 Start 76: testGeneralFileReader 76: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/testGeneralFileReader 76: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 76: Test timeout computed to be: 7200 76: [09:21:49] 76: ----------------------------------------- 76: [09:21:49] Finished: testDetermineFormat() 76: [09:21:49] ----------------------------------------- 76: 76: [09:21:49] 76: ----------------------------------------- 76: [09:21:49] Finished: testSdf() 76: [09:21:49] ----------------------------------------- 76: 76: [09:21:49] 76: ----------------------------------------- 72: [09:21:49] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 72: [09:21:49] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 72: [09:21:49] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 72: [09:21:49] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 76: [09:21:49] Finished: testSmi() 76: [09:21:49] ----------------------------------------- 76: 76: [09:21:49] 76: ----------------------------------------- 72: [09:21:49] deprecated group abbreviation ignored on line 24 72: smiles: [1*]c1c([2*])c([3*])c([4*])c(-c2c([9*])oc3c([8*])c([7*])c([6*])c([5*])c3c2=O)c1[10*] 72: [09:21:49] 72: 72: **** 72: Post-condition Violation 72: Element 'Mv' not found 72: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 72: Failed Expression: anum > -1 72: ---------- 72: Stacktrace: 72: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 72: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 72: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 3# 0x00000000000D6CF1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 4# 0x00000000000E5548 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 5# 0x00000000000E57C9 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 6# RDKit::FileParserUtils::ParseV2000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 8# RDKit::v2::FileParsers::MolFromMolFile(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 9# 0x000000000006150C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: 10# 0x00000000000C5DA2 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: 11# 0x000000000003FC46 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: 12# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 72: 13# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 72: 14# 0x000000000003FE41 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: ---------- 72: **** 72: 72: [09:21:49] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 72: [09:21:49] 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: [09:21:49] Finished: testMae() 76: [09:21:49] ----------------------------------------- 76: 76: [09:21:49] 76: ----------------------------------------- 76: [09:21:49] Finished: testTdt() 76: [09:21:49] ----------------------------------------- 76: 71/254 Test #76: testGeneralFileReader .................. Passed 0.05 sec test 77 Start 77: testMultithreadedMolSupplier 77: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/testMultithreadedMolSupplier 77: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 77: Test timeout computed to be: 7200 77: [09:21:49] 77: ----------------------------------------- 72: ---------------------------------- 72: ---------------------------------- 72: [09:21:49] 72: 72: **** 72: Pre-condition Violation 72: rlabel out of range for MDL files 72: Violation occurred on line 866 in file ./Code/GraphMol/Atom.cpp 72: Failed Expression: rlabel >= 0 && rlabel < 100 72: ---------- 72: Stacktrace: 72: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 72: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 72: 2# RDKit::setAtomRLabel(RDKit::Atom*, int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 72: 3# 0x0000000000045FE7 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: 4# 0x00000000000C5E1A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: 5# 0x000000000003FC46 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: 6# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 72: 7# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 72: 8# 0x000000000003FE41 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: ---------- 72: **** 72: 72: [09:21:49] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 72: [09:21:49] SMARTS Parse Error: syntax error while parsing: MyDogHasFleas 72: [09:21:49] SMARTS Parse Error: check for mistakes around position 1: 72: [09:21:49] MyDogHasFleas 72: [09:21:49] ^ 72: [09:21:49] SMARTS Parse Error: Failed parsing SMARTS 'MyDogHasFleas' for input: 'MyDogHasFleas' 72: [09:21:49] Empty atom list: 'M ALS 1 0 F' on line 8. 72: C 72: [09:21:49] ------------------------------------- 72: [09:21:49] Test multithreading Locale Switching 72: [09:21:49] Test multithreading (Done) 72: [09:21:49] ------------------------------------- 72: *************************************** 72: *************************************** 72: [09:21:49] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [09:21:49] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 72: [09:21:49] bond with order 0 found on line 7. This is not part of the MDL specification. 72: [09:21:49] Skipping unrecognized collection type at line 26: MDLV30/HILITE BONDS=(1 7) 72: [09:21:49] Skipping unrecognized collection type at line 27: MDLV30/HILITE ATOMS=(1 7) 72: [09:21:49] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 72: generating smiles 72: 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 72: converting back 72: check isomorphism 72: [09:21:49] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 72: [09:21:49] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 72: [09:21:49] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 72: [09:21:49] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 1 ignored 72: [09:21:49] deprecated group abbreviation ignored on line 24 72: smiles: [1*]c1c([2*])c([3*])c([4*])c(-c2c([9*])oc3c([8*])c([7*])c([6*])c([5*])c3c2=O)c1[10*] 72: [09:21:49] 72: 72: **** 72: Post-condition Violation 72: Element 'Mv' not found 72: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 72: Failed Expression: anum > -1 72: ---------- 72: Stacktrace: 72: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 72: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 72: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 3# 0x00000000000D6CF1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 4# 0x00000000000E5548 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 5# 0x00000000000E57C9 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 6# RDKit::FileParserUtils::ParseV2000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 8# RDKit::v2::FileParsers::MolFromMolFile(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 72: 9# 0x000000000006150C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: 10# 0x00000000000C5DA2 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: 11# 0x000000000003FCCD in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: 12# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 72: 13# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 72: 14# 0x000000000003FE41 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: ---------- 72: **** 72: 72: [09:21:49] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 72: [09:21:49] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 72: ---------------------------------- 72: ---------------------------------- 72: [09:21:49] 72: 72: **** 72: Pre-condition Violation 72: rlabel out of range for MDL files 72: Violation occurred on line 866 in file ./Code/GraphMol/Atom.cpp 72: Failed Expression: rlabel >= 0 && rlabel < 100 72: ---------- 72: Stacktrace: 72: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 72: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 72: 2# RDKit::setAtomRLabel(RDKit::Atom*, int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 72: 3# 0x0000000000045FE7 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: 4# 0x00000000000C5E1A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: 5# 0x000000000003FCCD in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: 6# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 72: 7# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 72: 8# 0x000000000003FE41 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersTest1 72: ---------- 72: **** 72: 72: [09:21:49] WARNING: could not find number of expected rings. Switching to an approximate ring finding algorithm. 72: [09:21:49] SMARTS Parse Error: syntax error while parsing: MyDogHasFleas 72: [09:21:49] SMARTS Parse Error: check for mistakes around position 1: 72: [09:21:49] MyDogHasFleas 72: [09:21:49] ^ 72: [09:21:49] SMARTS Parse Error: Failed parsing SMARTS 'MyDogHasFleas' for input: 'MyDogHasFleas' 72: [09:21:49] Empty atom list: 'M ALS 1 0 F' on line 8. 72/254 Test #72: fileParsersTest1 ....................... Passed 1.06 sec test 78 Start 78: testMolWriter 78: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/testMolWriter 78: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 78: Test timeout computed to be: 7200 78: [09:21:49] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 78: 0.40201265 0.40201265 78: -0.13299436 -0.13299436 78: 1.00000017 1.00000017 78: 0.8762226 0.8762226 78: 0.9973909 0.9973909 78: 1.00000003 1.00000003 78: 0.36613799 0.36613799 78: 2.1107185 2.1107185 78: 0.99999982 0.99999982 78: 2.48696157 2.48696157 78: 1.00479935 1.00479935 78: 0.99999999 0.99999999 78: 3.03311841 3.03311841 78: 2.23739955 2.23739955 78: 1.0000001 1.0000001 78: 3.00772337 3.00772337 78: 0.37399294 0.37399294 78: 2.07713325 2.07713325 78: 3.0077234 3.0077234 78: 0.37399312 0.37399312 78: -0.07713336 -0.07713336 78: [09:21:49] bond with order 0 found on line 11. This is not part of the MDL specification. 78: [09:21:49] bond with order 0 found on line 16. This is not part of the MDL specification. 73/254 Test #78: testMolWriter .......................... Passed 0.13 sec test 79 Start 79: testTplParser 79: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/testTplParser 79: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 79: Test timeout computed to be: 7200 74/254 Test #79: testTplParser .......................... Passed 0.02 sec test 80 Start 80: testMol2ToMol 80: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/testMol2ToMol 80: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 80: Test timeout computed to be: 7200 75/254 Test #80: testMol2ToMol .......................... Passed 0.02 sec test 81 Start 81: testSequence 81: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/testSequence 81: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 81: Test timeout computed to be: 7200 81: Sequence: GREG 81: HELM: PEPTIDE1{G.R.E.G}$$$$ 81: Smiles: N=C(N)NCCC[C@H](NC(=O)CN)C(=O)N[C@@H](CCC(=O)O)C(=O)NCC(=O)O 81: PDB: 81: ATOM 1 N GLY A 1 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 2 CA GLY A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 3 C GLY A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 4 O GLY A 1 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 5 N ARG A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 6 CA ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 7 C ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 8 O ARG A 2 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 9 CB ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 10 CG ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 11 CD ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 12 NE ARG A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 13 CZ ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 14 NH1 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 15 NH2 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 16 N GLU A 3 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 17 CA GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 18 C GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 19 O GLU A 3 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 20 CB GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 21 CG GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 22 CD GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 23 OE1 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 24 OE2 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 25 N GLY A 4 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 26 CA GLY A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 27 C GLY A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 28 O GLY A 4 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 29 OXT GLY A 4 0.000 0.000 0.000 1.00 0.00 O 81: CONECT 1 2 81: CONECT 2 3 81: CONECT 3 4 4 5 81: CONECT 5 6 81: CONECT 6 7 9 81: CONECT 7 8 8 16 81: CONECT 9 10 81: CONECT 10 11 81: CONECT 11 12 81: CONECT 12 13 81: CONECT 13 14 14 15 81: CONECT 16 17 81: CONECT 17 18 20 81: CONECT 18 19 19 25 81: CONECT 20 21 81: CONECT 21 22 81: CONECT 22 23 23 24 81: CONECT 25 26 81: CONECT 26 27 81: CONECT 27 28 28 29 81: END 81: 81: Sequence: TTCCPSIVARSNFNVCRLPGTPEAICATYTGCIIIPGATCPGDYAN 81: 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}$$$$ 81: 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 81: PDB: 81: ATOM 1 N THR A 1 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 2 CA THR A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 3 C THR A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 4 O THR A 1 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 5 CB THR A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 6 OG1 THR A 1 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 7 CG2 THR A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 8 N THR A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 9 CA THR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 10 C THR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 11 O THR A 2 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 12 CB THR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 13 OG1 THR A 2 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 14 CG2 THR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 15 N CYS A 3 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 16 CA CYS A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 17 C CYS A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 18 O CYS A 3 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 19 CB CYS A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 20 SG CYS A 3 0.000 0.000 0.000 1.00 0.00 S 81: ATOM 21 N CYS A 4 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 22 CA CYS A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 23 C CYS A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 24 O CYS A 4 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 25 CB CYS A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 26 SG CYS A 4 0.000 0.000 0.000 1.00 0.00 S 81: ATOM 27 N PRO A 5 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 28 CA PRO A 5 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 29 C PRO A 5 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 30 O PRO A 5 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 31 CB PRO A 5 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 32 CG PRO A 5 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 33 CD PRO A 5 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 34 N SER A 6 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 35 CA SER A 6 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 36 C SER A 6 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 37 O SER A 6 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 38 CB SER A 6 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 39 OG SER A 6 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 40 N ILE A 7 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 41 CA ILE A 7 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 42 C ILE A 7 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 43 O ILE A 7 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 44 CB ILE A 7 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 45 CG1 ILE A 7 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 46 CG2 ILE A 7 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 47 CD1 ILE A 7 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 48 N VAL A 8 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 49 CA VAL A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 50 C VAL A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 51 O VAL A 8 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 52 CB VAL A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 53 CG1 VAL A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 54 CG2 VAL A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 55 N ALA A 9 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 56 CA ALA A 9 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 57 C ALA A 9 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 58 O ALA A 9 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 59 CB ALA A 9 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 60 N ARG A 10 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 61 CA ARG A 10 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 62 C ARG A 10 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 63 O ARG A 10 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 64 CB ARG A 10 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 65 CG ARG A 10 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 66 CD ARG A 10 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 67 NE ARG A 10 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 68 CZ ARG A 10 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 69 NH1 ARG A 10 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 70 NH2 ARG A 10 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 71 N SER A 11 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 72 CA SER A 11 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 73 C SER A 11 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 74 O SER A 11 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 75 CB SER A 11 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 76 OG SER A 11 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 77 N ASN A 12 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 78 CA ASN A 12 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 79 C ASN A 12 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 80 O ASN A 12 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 81 CB ASN A 12 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 82 CG ASN A 12 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 83 OD1 ASN A 12 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 84 ND2 ASN A 12 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 85 N PHE A 13 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 86 CA PHE A 13 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 87 C PHE A 13 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 88 O PHE A 13 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 89 CB PHE A 13 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 90 CG PHE A 13 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 91 CD1 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 92 CD2 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 93 CE1 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 94 CE2 PHE A 13 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 95 CZ PHE A 13 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 96 N ASN A 14 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 97 CA ASN A 14 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 98 C ASN A 14 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 99 O ASN A 14 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 100 CB ASN A 14 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 101 CG ASN A 14 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 102 OD1 ASN A 14 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 103 ND2 ASN A 14 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 104 N VAL A 15 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 105 CA VAL A 15 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 106 C VAL A 15 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 107 O VAL A 15 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 108 CB VAL A 15 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 109 CG1 VAL A 15 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 110 CG2 VAL A 15 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 111 N CYS A 16 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 112 CA CYS A 16 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 113 C CYS A 16 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 114 O CYS A 16 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 115 CB CYS A 16 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 116 SG CYS A 16 0.000 0.000 0.000 1.00 0.00 S 81: ATOM 117 N ARG A 17 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 118 CA ARG A 17 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 119 C ARG A 17 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 120 O ARG A 17 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 121 CB ARG A 17 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 122 CG ARG A 17 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 123 CD ARG A 17 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 124 NE ARG A 17 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 125 CZ ARG A 17 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 126 NH1 ARG A 17 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 127 NH2 ARG A 17 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 128 N LEU A 18 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 129 CA LEU A 18 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 130 C LEU A 18 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 131 O LEU A 18 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 132 CB LEU A 18 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 133 CG LEU A 18 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 134 CD1 LEU A 18 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 135 CD2 LEU A 18 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 136 N PRO A 19 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 137 CA PRO A 19 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 138 C PRO A 19 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 139 O PRO A 19 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 140 CB PRO A 19 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 141 CG PRO A 19 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 142 CD PRO A 19 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 143 N GLY A 20 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 144 CA GLY A 20 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 145 C GLY A 20 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 146 O GLY A 20 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 147 N THR A 21 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 148 CA THR A 21 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 149 C THR A 21 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 150 O THR A 21 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 151 CB THR A 21 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 152 OG1 THR A 21 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 153 CG2 THR A 21 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 154 N PRO A 22 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 155 CA PRO A 22 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 156 C PRO A 22 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 157 O PRO A 22 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 158 CB PRO A 22 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 159 CG PRO A 22 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 160 CD PRO A 22 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 161 N GLU A 23 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 162 CA GLU A 23 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 163 C GLU A 23 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 164 O GLU A 23 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 165 CB GLU A 23 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 166 CG GLU A 23 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 167 CD GLU A 23 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 168 OE1 GLU A 23 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 169 OE2 GLU A 23 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 170 N ALA A 24 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 171 CA ALA A 24 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 172 C ALA A 24 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 173 O ALA A 24 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 174 CB ALA A 24 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 175 N ILE A 25 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 176 CA ILE A 25 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 177 C ILE A 25 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 178 O ILE A 25 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 179 CB ILE A 25 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 180 CG1 ILE A 25 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 181 CG2 ILE A 25 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 182 CD1 ILE A 25 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 183 N CYS A 26 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 184 CA CYS A 26 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 185 C CYS A 26 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 186 O CYS A 26 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 187 CB CYS A 26 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 188 SG CYS A 26 0.000 0.000 0.000 1.00 0.00 S 81: ATOM 189 N ALA A 27 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 190 CA ALA A 27 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 191 C ALA A 27 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 192 O ALA A 27 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 193 CB ALA A 27 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 194 N THR A 28 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 195 CA THR A 28 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 196 C THR A 28 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 197 O THR A 28 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 198 CB THR A 28 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 199 OG1 THR A 28 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 200 CG2 THR A 28 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 201 N TYR A 29 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 202 CA TYR A 29 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 203 C TYR A 29 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 204 O TYR A 29 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 205 CB TYR A 29 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 206 CG TYR A 29 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 207 CD1 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 208 CD2 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 209 CE1 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 210 CE2 TYR A 29 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 211 CZ TYR A 29 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 212 OH TYR A 29 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 213 N THR A 30 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 214 CA THR A 30 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 215 C THR A 30 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 216 O THR A 30 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 217 CB THR A 30 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 218 OG1 THR A 30 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 219 CG2 THR A 30 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 220 N GLY A 31 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 221 CA GLY A 31 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 222 C GLY A 31 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 223 O GLY A 31 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 224 N CYS A 32 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 225 CA CYS A 32 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 226 C CYS A 32 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 227 O CYS A 32 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 228 CB CYS A 32 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 229 SG CYS A 32 0.000 0.000 0.000 1.00 0.00 S 81: ATOM 230 N ILE A 33 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 231 CA ILE A 33 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 232 C ILE A 33 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 233 O ILE A 33 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 234 CB ILE A 33 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 235 CG1 ILE A 33 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 236 CG2 ILE A 33 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 237 CD1 ILE A 33 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 238 N ILE A 34 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 239 CA ILE A 34 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 240 C ILE A 34 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 241 O ILE A 34 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 242 CB ILE A 34 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 243 CG1 ILE A 34 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 244 CG2 ILE A 34 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 245 CD1 ILE A 34 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 246 N ILE A 35 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 247 CA ILE A 35 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 248 C ILE A 35 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 249 O ILE A 35 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 250 CB ILE A 35 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 251 CG1 ILE A 35 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 252 CG2 ILE A 35 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 253 CD1 ILE A 35 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 254 N PRO A 36 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 255 CA PRO A 36 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 256 C PRO A 36 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 257 O PRO A 36 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 258 CB PRO A 36 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 259 CG PRO A 36 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 260 CD PRO A 36 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 261 N GLY A 37 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 262 CA GLY A 37 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 263 C GLY A 37 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 264 O GLY A 37 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 265 N ALA A 38 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 266 CA ALA A 38 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 267 C ALA A 38 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 268 O ALA A 38 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 269 CB ALA A 38 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 270 N THR A 39 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 271 CA THR A 39 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 272 C THR A 39 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 273 O THR A 39 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 274 CB THR A 39 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 275 OG1 THR A 39 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 276 CG2 THR A 39 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 277 N CYS A 40 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 278 CA CYS A 40 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 279 C CYS A 40 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 280 O CYS A 40 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 281 CB CYS A 40 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 282 SG CYS A 40 0.000 0.000 0.000 1.00 0.00 S 81: ATOM 283 N PRO A 41 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 284 CA PRO A 41 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 285 C PRO A 41 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 286 O PRO A 41 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 287 CB PRO A 41 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 288 CG PRO A 41 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 289 CD PRO A 41 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 290 N GLY A 42 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 291 CA GLY A 42 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 292 C GLY A 42 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 293 O GLY A 42 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 294 N ASP A 43 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 295 CA ASP A 43 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 296 C ASP A 43 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 297 O ASP A 43 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 298 CB ASP A 43 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 299 CG ASP A 43 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 300 OD1 ASP A 43 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 301 OD2 ASP A 43 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 302 N TYR A 44 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 303 CA TYR A 44 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 304 C TYR A 44 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 305 O TYR A 44 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 306 CB TYR A 44 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 307 CG TYR A 44 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 308 CD1 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 309 CD2 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 310 CE1 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 311 CE2 TYR A 44 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 312 CZ TYR A 44 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 313 OH TYR A 44 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 314 N ALA A 45 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 315 CA ALA A 45 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 316 C ALA A 45 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 317 O ALA A 45 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 318 CB ALA A 45 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 319 N ASN A 46 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 320 CA ASN A 46 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 321 C ASN A 46 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 322 O ASN A 46 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 323 CB ASN A 46 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 324 CG ASN A 46 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 325 OD1 ASN A 46 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 326 ND2 ASN A 46 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 327 OXT ASN A 46 0.000 0.000 0.000 1.00 0.00 O 81: CONECT 1 2 81: CONECT 2 3 5 81: CONECT 3 4 4 8 81: CONECT 5 6 7 81: CONECT 8 9 81: CONECT 9 10 12 81: CONECT 10 11 11 15 81: CONECT 12 13 14 81: CONECT 15 16 81: CONECT 16 17 19 81: CONECT 17 18 18 21 81: CONECT 19 20 81: CONECT 21 22 81: CONECT 22 23 25 81: CONECT 23 24 24 27 81: CONECT 25 26 81: CONECT 27 28 33 81: CONECT 28 29 31 81: CONECT 29 30 30 34 81: CONECT 31 32 81: CONECT 32 33 81: CONECT 34 35 81: CONECT 35 36 38 81: CONECT 36 37 37 40 81: CONECT 38 39 81: CONECT 40 41 81: CONECT 41 42 44 81: CONECT 42 43 43 48 81: CONECT 44 45 46 81: CONECT 46 47 81: CONECT 48 49 81: CONECT 49 50 52 81: CONECT 50 51 51 55 81: CONECT 52 53 54 81: CONECT 55 56 81: CONECT 56 57 59 81: CONECT 57 58 58 60 81: CONECT 60 61 81: CONECT 61 62 64 81: CONECT 62 63 63 71 81: CONECT 64 65 81: CONECT 65 66 81: CONECT 66 67 81: CONECT 67 68 81: CONECT 68 69 69 70 81: CONECT 71 72 81: CONECT 72 73 75 81: CONECT 73 74 74 77 81: CONECT 75 76 81: CONECT 77 78 81: CONECT 78 79 81 81: CONECT 79 80 80 85 81: CONECT 81 82 81: CONECT 82 83 83 84 81: CONECT 85 86 81: CONECT 86 87 89 81: CONECT 87 88 88 96 81: CONECT 89 90 81: CONECT 90 91 91 92 81: CONECT 91 93 81: CONECT 92 94 94 81: CONECT 93 95 95 81: CONECT 94 95 81: CONECT 96 97 81: CONECT 97 98 100 81: CONECT 98 99 99 104 81: CONECT 100 101 81: CONECT 101 102 102 103 81: CONECT 104 105 81: CONECT 105 106 108 81: CONECT 106 107 107 111 81: CONECT 108 109 110 81: CONECT 111 112 81: CONECT 112 113 115 81: CONECT 113 114 114 117 81: CONECT 115 116 81: CONECT 117 118 81: CONECT 118 119 121 81: CONECT 119 120 120 128 81: CONECT 121 122 81: CONECT 122 123 81: CONECT 123 124 81: CONECT 124 125 81: CONECT 125 126 126 127 81: CONECT 128 129 81: CONECT 129 130 132 81: CONECT 130 131 131 136 81: CONECT 132 133 81: CONECT 133 134 135 81: CONECT 136 137 142 81: CONECT 137 138 140 81: CONECT 138 139 139 143 81: CONECT 140 141 81: CONECT 141 142 81: CONECT 143 144 81: CONECT 144 145 81: CONECT 145 146 146 147 81: CONECT 147 148 81: CONECT 148 149 151 81: CONECT 149 150 150 154 81: CONECT 151 152 153 81: CONECT 154 155 160 81: CONECT 155 156 158 81: CONECT 156 157 157 161 81: CONECT 158 159 81: CONECT 159 160 81: CONECT 161 162 81: CONECT 162 163 165 81: CONECT 163 164 164 170 81: CONECT 165 166 81: CONECT 166 167 81: CONECT 167 168 168 169 81: CONECT 170 171 81: CONECT 171 172 174 81: CONECT 172 173 173 175 81: CONECT 175 176 81: CONECT 176 177 179 81: CONECT 177 178 178 183 81: CONECT 179 180 181 81: CONECT 181 182 81: CONECT 183 184 81: CONECT 184 185 187 81: CONECT 185 186 186 189 81: CONECT 187 188 81: CONECT 189 190 81: CONECT 190 191 193 81: CONECT 191 192 192 194 81: CONECT 194 195 81: CONECT 195 196 198 81: CONECT 196 197 197 201 81: CONECT 198 199 200 81: CONECT 201 202 81: CONECT 202 203 205 81: CONECT 203 204 204 213 81: CONECT 205 206 81: CONECT 206 207 208 208 81: CONECT 207 209 209 81: CONECT 208 210 81: CONECT 209 211 81: CONECT 210 211 211 81: CONECT 211 212 81: CONECT 213 214 81: CONECT 214 215 217 81: CONECT 215 216 216 220 81: CONECT 217 218 219 81: CONECT 220 221 81: CONECT 221 222 81: CONECT 222 223 223 224 81: CONECT 224 225 81: CONECT 225 226 228 81: CONECT 226 227 227 230 81: CONECT 228 229 81: CONECT 230 231 81: CONECT 231 232 234 81: CONECT 232 233 233 238 81: CONECT 234 235 236 81: CONECT 236 237 81: CONECT 238 239 81: CONECT 239 240 242 81: CONECT 240 241 241 246 81: CONECT 242 243 244 81: CONECT 244 245 81: CONECT 246 247 81: CONECT 247 248 250 81: CONECT 248 249 249 254 81: CONECT 250 251 252 81: CONECT 252 253 81: CONECT 254 255 260 81: CONECT 255 256 258 81: CONECT 256 257 257 261 81: CONECT 258 259 81: CONECT 259 260 81: CONECT 261 262 81: CONECT 262 263 81: CONECT 263 264 264 265 81: CONECT 265 266 81: CONECT 266 267 269 81: CONECT 267 268 268 270 81: CONECT 270 271 81: CONECT 271 272 274 81: CONECT 272 273 273 277 81: CONECT 274 275 276 81: CONECT 277 278 81: CONECT 278 279 281 81: CONECT 279 280 280 283 81: CONECT 281 282 81: CONECT 283 284 289 81: CONECT 284 285 287 81: CONECT 285 286 286 290 81: CONECT 287 288 81: CONECT 288 289 81: CONECT 290 291 81: CONECT 291 292 81: CONECT 292 293 293 294 81: CONECT 294 295 81: CONECT 295 296 298 81: CONECT 296 297 297 302 81: CONECT 298 299 81: CONECT 299 300 300 301 81: CONECT 302 303 81: CONECT 303 304 306 81: CONECT 304 305 305 314 81: CONECT 306 307 81: CONECT 307 308 309 309 81: CONECT 308 310 310 81: CONECT 309 311 81: CONECT 310 312 81: CONECT 311 312 312 81: CONECT 312 313 81: CONECT 314 315 81: CONECT 315 316 318 81: CONECT 316 317 317 319 81: CONECT 319 320 81: CONECT 320 321 323 81: CONECT 321 322 322 327 81: CONECT 323 324 81: CONECT 324 325 325 326 81: END 81: 81: Sequence: GREG 81: HELM: PEPTIDE1{G.R.E.G}$$$$ 81: Smiles: N=C(N)NCCC[C@H](NC(=O)CN)C(=O)N[C@@H](CCC(=O)O)C(=O)NCC(=O)O 81: PDB: 81: ATOM 1 N GLY A 1 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 2 CA GLY A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 3 C GLY A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 4 O GLY A 1 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 5 N ARG A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 6 CA ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 7 C ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 8 O ARG A 2 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 9 CB ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 10 CG ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 11 CD ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 12 NE ARG A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 13 CZ ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 14 NH1 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 15 NH2 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 16 N GLU A 3 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 17 CA GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 18 C GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 19 O GLU A 3 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 20 CB GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 21 CG GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 22 CD GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 23 OE1 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 24 OE2 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 25 N GLY A 4 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 26 CA GLY A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 27 C GLY A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 28 O GLY A 4 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 29 OXT GLY A 4 0.000 0.000 0.000 1.00 0.00 O 81: CONECT 1 2 81: CONECT 2 3 81: CONECT 3 4 4 5 81: CONECT 5 6 81: CONECT 6 7 9 81: CONECT 7 8 8 16 81: CONECT 9 10 81: CONECT 10 11 81: CONECT 11 12 81: CONECT 12 13 81: CONECT 13 14 14 15 81: CONECT 16 17 81: CONECT 17 18 20 81: CONECT 18 19 19 25 81: CONECT 20 21 81: CONECT 21 22 81: CONECT 22 23 23 24 81: CONECT 25 26 81: CONECT 26 27 81: CONECT 27 28 28 29 81: END 81: 81: Sequence: CYIQNCPLG 81: HELM: PEPTIDE1{C.Y.I.Q.N.C.P.L.G.[am]}$PEPTIDE1,PEPTIDE1,1:R3-6:R3$$$ 81: 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 81: PDB: 81: ATOM 1 N CYS A 1 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 2 CA CYS A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 3 C CYS A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 4 O CYS A 1 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 5 CB CYS A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 6 SG CYS A 1 0.000 0.000 0.000 1.00 0.00 S 81: ATOM 7 N TYR A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 8 CA TYR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 9 C TYR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 10 O TYR A 2 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 11 CB TYR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 12 CG TYR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 13 CD1 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 14 CD2 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 15 CE1 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 16 CE2 TYR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 17 CZ TYR A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 18 OH TYR A 2 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 19 N ILE A 3 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 20 CA ILE A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 21 C ILE A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 22 O ILE A 3 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 23 CB ILE A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 24 CG1 ILE A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 25 CG2 ILE A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 26 CD1 ILE A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 27 N GLN A 4 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 28 CA GLN A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 29 C GLN A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 30 O GLN A 4 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 31 CB GLN A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 32 CG GLN A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 33 CD GLN A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 34 OE1 GLN A 4 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 35 NE2 GLN A 4 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 36 N ASN A 5 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 37 CA ASN A 5 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 38 C ASN A 5 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 39 O ASN A 5 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 40 CB ASN A 5 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 41 CG ASN A 5 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 42 OD1 ASN A 5 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 43 ND2 ASN A 5 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 44 N CYS A 6 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 45 CA CYS A 6 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 46 C CYS A 6 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 47 O CYS A 6 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 48 CB CYS A 6 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 49 SG CYS A 6 0.000 0.000 0.000 1.00 0.00 S 81: ATOM 50 N PRO A 7 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 51 CA PRO A 7 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 52 C PRO A 7 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 53 O PRO A 7 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 54 CB PRO A 7 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 55 CG PRO A 7 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 56 CD PRO A 7 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 57 N LEU A 8 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 58 CA LEU A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 59 C LEU A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 60 O LEU A 8 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 61 CB LEU A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 62 CG LEU A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 63 CD1 LEU A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 64 CD2 LEU A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 65 N GLY A 9 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 66 CA GLY A 9 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 67 C GLY A 9 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 68 O GLY A 9 0.000 0.000 0.000 1.00 0.00 O 81: HETATM 69 N NH2 A 10 0.000 0.000 0.000 1.00 0.00 N 81: CONECT 1 2 81: CONECT 2 3 5 81: CONECT 3 4 4 7 81: CONECT 5 6 81: CONECT 6 49 81: CONECT 7 8 81: CONECT 8 9 11 81: CONECT 9 10 10 19 81: CONECT 11 12 81: CONECT 12 13 14 14 81: CONECT 13 15 15 81: CONECT 14 16 81: CONECT 15 17 81: CONECT 16 17 17 81: CONECT 17 18 81: CONECT 19 20 81: CONECT 20 21 23 81: CONECT 21 22 22 27 81: CONECT 23 24 25 81: CONECT 25 26 81: CONECT 27 28 81: CONECT 28 29 31 81: CONECT 29 30 30 36 81: CONECT 31 32 81: CONECT 32 33 81: CONECT 33 34 34 35 81: CONECT 36 37 81: CONECT 37 38 40 81: CONECT 38 39 39 44 81: CONECT 40 41 81: CONECT 41 42 42 43 81: CONECT 44 45 81: CONECT 45 46 48 81: CONECT 46 47 47 50 81: CONECT 48 49 81: CONECT 50 51 56 81: CONECT 51 52 54 81: CONECT 52 53 53 57 81: CONECT 54 55 81: CONECT 55 56 81: CONECT 57 58 81: CONECT 58 59 61 81: CONECT 59 60 60 65 81: CONECT 61 62 81: CONECT 62 63 64 81: CONECT 65 66 81: CONECT 66 67 81: CONECT 67 68 68 69 81: END 81: 81: Sequence: LfPVXLfPVX 81: HELM: PEPTIDE1{L.[dF].P.V.[Orn].L.[dF].P.V.[Orn]}$PEPTIDE1,PEPTIDE1,10:R2-1:R1$$$ 81: 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 81: PDB: 81: ATOM 1 N LEU A 1 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 2 CA LEU A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 3 C LEU A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 4 O LEU A 1 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 5 CB LEU A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 6 CG LEU A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 7 CD1 LEU A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 8 CD2 LEU A 1 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 9 N DPN A 2 0.000 0.000 0.000 1.00 0.00 N 81: HETATM 10 CA DPN A 2 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 11 C DPN A 2 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 12 O DPN A 2 0.000 0.000 0.000 1.00 0.00 O 81: HETATM 13 CB DPN A 2 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 14 CG DPN A 2 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 15 CD1 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 16 CD2 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 17 CE1 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 18 CE2 DPN A 2 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 19 CZ DPN A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 20 N PRO A 3 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 21 CA PRO A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 22 C PRO A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 23 O PRO A 3 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 24 CB PRO A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 25 CG PRO A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 26 CD PRO A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 27 N VAL A 4 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 28 CA VAL A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 29 C VAL A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 30 O VAL A 4 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 31 CB VAL A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 32 CG1 VAL A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 33 CG2 VAL A 4 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 34 N ORN A 5 0.000 0.000 0.000 1.00 0.00 N 81: HETATM 35 CA ORN A 5 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 36 C ORN A 5 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 37 O ORN A 5 0.000 0.000 0.000 1.00 0.00 O 81: HETATM 38 CB ORN A 5 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 39 CG ORN A 5 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 40 CD ORN A 5 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 41 NE ORN A 5 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 42 N LEU A 6 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 43 CA LEU A 6 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 44 C LEU A 6 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 45 O LEU A 6 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 46 CB LEU A 6 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 47 CG LEU A 6 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 48 CD1 LEU A 6 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 49 CD2 LEU A 6 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 50 N DPN A 7 0.000 0.000 0.000 1.00 0.00 N 81: HETATM 51 CA DPN A 7 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 52 C DPN A 7 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 53 O DPN A 7 0.000 0.000 0.000 1.00 0.00 O 81: HETATM 54 CB DPN A 7 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 55 CG DPN A 7 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 56 CD1 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 57 CD2 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 58 CE1 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 59 CE2 DPN A 7 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 60 CZ DPN A 7 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 61 N PRO A 8 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 62 CA PRO A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 63 C PRO A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 64 O PRO A 8 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 65 CB PRO A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 66 CG PRO A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 67 CD PRO A 8 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 68 N VAL A 9 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 69 CA VAL A 9 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 70 C VAL A 9 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 71 O VAL A 9 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 72 CB VAL A 9 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 73 CG1 VAL A 9 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 74 CG2 VAL A 9 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 75 N ORN A 10 0.000 0.000 0.000 1.00 0.00 N 81: HETATM 76 CA ORN A 10 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 77 C ORN A 10 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 78 O ORN A 10 0.000 0.000 0.000 1.00 0.00 O 81: HETATM 79 CB ORN A 10 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 80 CG ORN A 10 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 81 CD ORN A 10 0.000 0.000 0.000 1.00 0.00 C 81: HETATM 82 NE ORN A 10 0.000 0.000 0.000 1.00 0.00 N 81: CONECT 1 2 77 81: CONECT 2 3 5 81: CONECT 3 4 4 9 81: CONECT 5 6 81: CONECT 6 7 8 81: CONECT 9 10 81: CONECT 10 11 13 81: CONECT 11 12 12 20 81: CONECT 13 14 81: CONECT 14 15 15 16 81: CONECT 15 17 81: CONECT 16 18 18 81: CONECT 17 19 19 81: CONECT 18 19 81: CONECT 20 21 26 81: CONECT 21 22 24 81: CONECT 22 23 23 27 81: CONECT 24 25 81: CONECT 25 26 81: CONECT 27 28 81: CONECT 28 29 31 81: CONECT 29 30 30 34 81: CONECT 31 32 33 81: CONECT 34 35 81: CONECT 35 36 38 81: CONECT 36 37 37 42 81: CONECT 38 39 81: CONECT 39 40 81: CONECT 40 41 81: CONECT 42 43 81: CONECT 43 44 46 81: CONECT 44 45 45 50 81: CONECT 46 47 81: CONECT 47 48 49 81: CONECT 50 51 81: CONECT 51 52 54 81: CONECT 52 53 53 61 81: CONECT 54 55 81: CONECT 55 56 56 57 81: CONECT 56 58 81: CONECT 57 59 59 81: CONECT 58 60 60 81: CONECT 59 60 81: CONECT 61 62 67 81: CONECT 62 63 65 81: CONECT 63 64 64 68 81: CONECT 65 66 81: CONECT 66 67 81: CONECT 68 69 81: CONECT 69 70 72 81: CONECT 70 71 71 75 81: CONECT 72 73 74 81: CONECT 75 76 81: CONECT 76 77 79 81: CONECT 77 78 78 81: CONECT 79 80 81: CONECT 80 81 81: CONECT 81 82 81: END 81: 81: Sequence: GREG 81: HELM: PEPTIDE1{G.R.E.G}$$$$ 81: Smiles: N=C(N)NCCCC(NC(=O)CN)C(=O)NC(CCC(=O)O)C(=O)NCC(=O)O 81: PDB: 81: ATOM 1 N GLY A 1 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 2 CA GLY A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 3 C GLY A 1 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 4 O GLY A 1 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 5 N ARG A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 6 CA ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 7 C ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 8 O ARG A 2 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 9 CB ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 10 CG ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 11 CD ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 12 NE ARG A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 13 CZ ARG A 2 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 14 NH1 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 15 NH2 ARG A 2 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 16 N GLU A 3 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 17 CA GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 18 C GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 19 O GLU A 3 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 20 CB GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 21 CG GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 22 CD GLU A 3 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 23 OD1 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 24 OD2 GLU A 3 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 25 N GLY A 4 0.000 0.000 0.000 1.00 0.00 N 81: ATOM 26 CA GLY A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 27 C GLY A 4 0.000 0.000 0.000 1.00 0.00 C 81: ATOM 28 O GLY A 4 0.000 0.000 0.000 1.00 0.00 O 81: ATOM 29 OXT GLY A 4 0.000 0.000 0.000 1.00 0.00 O 81: CONECT 1 2 81: CONECT 2 3 81: CONECT 3 4 4 5 81: CONECT 5 6 81: CONECT 6 7 9 81: CONECT 7 8 8 16 81: CONECT 9 10 81: CONECT 10 11 81: CONECT 11 12 81: CONECT 12 13 81: CONECT 13 14 14 15 81: CONECT 16 17 81: CONECT 17 18 20 81: CONECT 18 19 19 25 81: CONECT 20 21 81: CONECT 21 22 81: CONECT 22 23 23 24 81: CONECT 25 26 81: CONECT 26 27 81: CONECT 27 28 28 29 81: END 81: 76/254 Test #81: testSequence ........................... Passed 0.02 sec test 82 Start 82: testExtendedStereoParsing 82: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/testExtendedStereoParsing 82: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 82: Test timeout computed to be: 7200 77/254 Test #82: testExtendedStereoParsing .............. Passed 0.02 sec test 83 Start 83: fileParsersCatchTest 83: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 83: Test timeout computed to be: 7200 83: Randomness seeded to: 1482537246 83: [09:21:50] SGroup SAP line too short: 'M SAP 1 1 8' on line 29 83: [09:21:50] SGroup SAP line too short: 'M SAP 1 1 8' on line 28 83: [09:21:50] Could not infer missing lvIdx on malformed SAP line for SGroup 1 83: [09:21:50] SGroup 1 is invalid and will be ignored 83: [09:21:50] SGroup SAP line too short: 'M SAP 1 1 8' on line 28 83: [09:21:50] Could not infer missing lvIdx on malformed SAP line for SGroup 1 83: [09:21:50] SGroup 1 is invalid and will be ignored 83: [09:21:50] SGroup SAP line too short: 'M SAP 1 1 8' on line 35 83: [09:21:50] SGroup SAP line too short: 'M SAP 2 1 12' on line 39 83: [09:21:50] SGroup SAP line too short: 'M SAP 1 1 8' on line 34 83: [09:21:50] SGroup SAP line too short: 'M SAP 2 1 12' on line 38 83: [09:21:50] Could not infer missing lvIdx on malformed SAP line for SGroup 1 83: [09:21:50] SGroup 1 is invalid and will be ignored 83: [09:21:50] SGroup SAP line too short: 'M SAP 1 1 8' on line 34 83: [09:21:50] SGroup SAP line too short: 'M SAP 2 1 12' on line 39 83: [09:21:50] Could not infer missing lvIdx on malformed SAP line for SGroup 1 83: [09:21:50] SGroup 1 is invalid and will be ignored 83: [09:21:50] SGroup 3 referenced on line 40 not found. 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: no bonds 83: Violation occurred on line 181 in file ./Code/GraphMol/SubstanceGroup.cpp 83: Failed Expression: !d_bonds.empty() 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::SubstanceGroup::addCState(unsigned int, RDGeom::Point3D const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 4# 0x00000000000E329E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 6# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# 0x00000000000C63F8 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 8# 0x0000000000098608 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 16# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] SGroup 3 referenced on line 40 not found. 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: no bonds 83: Violation occurred on line 181 in file ./Code/GraphMol/SubstanceGroup.cpp 83: Failed Expression: !d_bonds.empty() 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::SubstanceGroup::addCState(unsigned int, RDGeom::Point3D const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 4# 0x00000000000E329E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 6# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# 0x00000000000986B0 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 8# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 15# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 16# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] no bonds 83: [09:21:50] SGroup 1 is invalid and will be ignored 83: [09:21:50] SGroup line too short: 'M SBV 1 6' on line 42 83: [09:21:50] SGroup 1 is invalid and will be ignored 83: [09:21:50] SGroup line too short: 'M SBL 2 3 9 10' on line 46 83: [09:21:50] SGroup 2 is invalid and will be ignored 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bookmark not found 83: Violation occurred on line 260 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: (lu != d_bondBookmarks.end()) 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# 0x00000000000E3133 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 6# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# 0x00000000000C63F8 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x00000000000990AA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bookmark not found 83: Violation occurred on line 260 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: (lu != d_bondBookmarks.end()) 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# 0x00000000000E3133 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 6# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# 0x0000000000099152 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 16# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] bookmark not found 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bond is not part of the SubstanceGroup 83: Violation occurred on line 200 in file ./Code/GraphMol/SubstanceGroup.cpp 83: Failed Expression: std::find(d_bonds.begin(), d_bonds.end(), bondIdx) != d_bonds.end() 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::SubstanceGroup::getBondType(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addCState(unsigned int, RDGeom::Point3D const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# 0x00000000000E329E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 6# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# 0x0000000000099152 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 16# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] bond is not part of the SubstanceGroup 83: [09:21:50] SGroup 2 is invalid and will be ignored 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bookmark not found 83: Violation occurred on line 238 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: (lu != d_atomBookmarks.end()) 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# 0x00000000000E3133 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 6# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# 0x00000000000C63F8 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x0000000000099426 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bookmark not found 83: Violation occurred on line 238 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: (lu != d_atomBookmarks.end()) 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# 0x00000000000E3133 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 6# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# 0x00000000000994CE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 16# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] bookmark not found 83: [09:21:50] Neither beginning nor ending atoms of bond 9 is in this SubstanceGroup. 83: [09:21:50] SGroup 2 is invalid and will be ignored 83: [09:21:50] WARNING: final character of V3000 array is not ')' 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bookmark not found 83: Violation occurred on line 260 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: (lu != d_bondBookmarks.end()) 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 9# 0x00000000000C63F8 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x0000000000097022 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 17# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 19# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] WARNING: final character of V3000 array is not ')' 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bookmark not found 83: Violation occurred on line 260 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: (lu != d_bondBookmarks.end()) 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 9# 0x00000000000970BA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] bookmark not found 83: [09:21:50] SGroup 1 is invalid and will be ignored 83: [09:21:50] WARNING: final character of V3000 array is not ')' 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bookmark not found 83: Violation occurred on line 238 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: (lu != d_atomBookmarks.end()) 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 9# 0x00000000000C63F8 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x0000000000097373 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 17# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 19# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] WARNING: final character of V3000 array is not ')' 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bookmark not found 83: Violation occurred on line 238 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: (lu != d_atomBookmarks.end()) 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 9# 0x000000000009740B in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] bookmark not found 83: [09:21:50] SGroup 1 is invalid and will be ignored 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bookmark not found 83: Violation occurred on line 260 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: (lu != d_bondBookmarks.end()) 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 9# 0x00000000000C63F8 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x00000000000976C3 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 17# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 19# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bookmark not found 83: Violation occurred on line 260 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: (lu != d_bondBookmarks.end()) 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getUniqueBondWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addBondWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 9# 0x000000000009775C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] bookmark not found 83: [09:21:50] SGroup 2 is invalid and will be ignored 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bookmark not found 83: Violation occurred on line 238 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: (lu != d_atomBookmarks.end()) 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 9# 0x00000000000C63F8 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x0000000000097A11 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 17# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 19# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: bookmark not found 83: Violation occurred on line 238 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: (lu != d_atomBookmarks.end()) 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getUniqueAtomWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# RDKit::SubstanceGroup::addAtomWithBookmark(int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# RDKit::SGroupParsing::ParseV3000SGroupsBlock[abi:cxx11](std::istream*, unsigned int&, unsigned int, RDKit::RWMol*, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 9# 0x0000000000097AAB in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] bookmark not found 83: [09:21:50] SGroup 2 is invalid and will be ignored 83: [09:21:50] Explicit valence for atom # 2 O, 3, is greater than permitted 83: [09:21:50] Explicit valence for atom # 1 O, 3, is greater than permitted 83: [09:21:50] Explicit valence for atom # 1 C, 5, is greater than permitted 83: [09:21:50] sanitize [09:21:50] UNK: [09:21:50] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 83: [09:21:50] skipping block at line 7: 'BEGIN ATOM' 83: ATOM 1 CHLO CHL 0 0.000 0.000 0.000 1.00 0.00 CL 83: END 83: 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: no stream 83: Violation occurred on line 167 in file ./Code/GraphMol/FileParsers/SDMolSupplier.cpp 83: Failed Expression: dp_inStream 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::v2::FileParsers::SDMolSupplier::next() in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 3# 0x00000000000C7265 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 4# 0x000000000008D495 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 5# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 6# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 7# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 8# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 13# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: no stream 83: Violation occurred on line 186 in file ./Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp 83: Failed Expression: dp_inStream 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::v2::FileParsers::ForwardSDMolSupplier::next() in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 3# 0x00000000000C7265 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 4# 0x000000000008D680 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 5# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 6# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 7# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 8# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 13# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: no stream 83: Violation occurred on line 407 in file ./Code/GraphMol/FileParsers/SmilesMolSupplier.cpp 83: Failed Expression: dp_inStream 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::v2::FileParsers::SmilesMolSupplier::next() in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 3# 0x00000000000C7265 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 4# 0x000000000008E11B in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 5# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 6# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 7# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 8# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 13# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: no stream 83: Violation occurred on line 263 in file ./Code/GraphMol/FileParsers/TDTMolSupplier.cpp 83: Failed Expression: dp_inStream 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::v2::FileParsers::TDTMolSupplier::next() in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 3# 0x00000000000C7265 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 4# 0x000000000008DB28 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 5# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 6# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 7# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 8# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 13# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: no stream 83: Violation occurred on line 595 in file ./Code/GraphMol/FileParsers/MaeMolSupplier.cpp 83: Failed Expression: dp_sInStream != nullptr 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::v2::FileParsers::MaeMolSupplier::next() in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 3# 0x00000000000C7265 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 4# 0x000000000008DD87 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 5# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 6# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 7# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 8# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 13# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] Found a SCD/SED line with missing/empty SDT specification at line 21 83: [09:21:50] Found a SCD/SED line with missing/empty SDT specification at line 20 83: [09:21:50] BEGIN SGROUP line not found on line 14 83: [09:21:50] Unhandled CTAB feature: 'Unsupported SGroup type '' on line 18'. Molecule skipped. 83: [09:21:50] END SGROUP line not found on line 19 83: [09:21:50] END SGROUP line not found on line 21 83: [09:21:50] MRV_COORDINATE_BOND_TYPE SGroup with value 0 does not reference a query bond, ignoring. 83: [09:21:50] MRV_COORDINATE_BOND_TYPE SGroup with value 1 does not reference a query bond, ignoring. 83: [09:21:50] 83: 83: **** 83: Range Error 83: idx 83: Violation occurred on line 322 in file ./Code/GraphMol/ROMol.cpp 83: Failed Expression: 99 < 9 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::ROMol::getBondWithIdx(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 83: 3# 0x00000000000F122C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 4# RDKit::FileParserUtils::finishMolProcessing(RDKit::RWMol*, bool, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 6# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# 0x00000000000C757D in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 8# 0x0000000000088CD6 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 16# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] molecule does not contain a bond matching the MRV_COORDINATE_BOND_TYPE SGroup for bond 99, ignoring. 83: [09:21:50] Multiple ATTCHPT values for atom 2 on line 9 83: [09:21:50] Found a SCD/SED line with missing/empty SDT specification at line 12 83: [09:21:50] SMARTS Parse Error: syntax error while parsing: [#6;R 83: [09:21:50] SMARTS Parse Error: check for mistakes around position 5: 83: [09:21:50] [#6;R 83: [09:21:50] ~~~~^ 83: [09:21:50] SMARTS Parse Error: Failed parsing SMARTS '[#6;R' for input: '[#6;R' 83: [09:21:50] SMARTS for SMARTSQ '[#6;R' could not be parsed or has no atoms. Ignoring it. 83: [09:21:50] Skipping empty SMARTS value for SMARTSQ. 83: [09:21:50] unrecognized QUERYOP '>' for SMARTSQ. Query ignored. 83: [09:21:50] Found a SCD/SED line with missing/empty SDT specification at line 12 83: [09:21:50] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 83: [09:21:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 83: [09:21:50] WARNING: Skipping property bar because the value includes an illegal blank line 83: [09:21:50] WARNING: Skipping property baz because the value includes an illegal blank line 83: [09:21:50] WARNING: Skipping property bletch 83: nope because the name includes a newline 83: [09:21:50] WARNING: Skipping property bletch 83: nope2 because the name includes a newline 83: [09:21:50] 83: 83: **** 83: Post-condition Violation 83: Element 'QQQ' not found 83: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 83: Failed Expression: anum > -1 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 3# 0x00000000000D6CF1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 4# 0x00000000000E7991 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# 0x00000000000E97F6 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 9# 0x000000000006236F in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] 83: 83: **** 83: Post-condition Violation 83: Element 'QQQ' not found 83: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 83: Failed Expression: anum > -1 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 3# 0x00000000000D6CF1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 4# 0x00000000000E7991 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# 0x00000000000E97F6 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 9# 0x0000000000061C47 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] 83: 83: **** 83: Post-condition Violation 83: Element 'QQQ' not found 83: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 83: Failed Expression: anum > -1 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 3# 0x00000000000D6CF1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 4# 0x00000000000E5548 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# 0x00000000000E57C9 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 6# RDKit::FileParserUtils::ParseV2000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 9# 0x0000000000062317 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] 83: 83: **** 83: Post-condition Violation 83: Element 'QQQ' not found 83: Violation occurred on line 93 in file ./Code/GraphMol/PeriodicTable.h 83: Failed Expression: anum > -1 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::PeriodicTable::getAtomicNumber(std::__cxx11::basic_string, std::allocator > const&) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 3# 0x00000000000D6CF1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 4# 0x00000000000E5548 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 5# 0x00000000000E57C9 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 6# RDKit::FileParserUtils::ParseV2000CTAB(std::istream*, unsigned int&, RDKit::RWMol*, RDKit::Conformer*&, bool&, unsigned int&, unsigned int&, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 7# RDKit::v2::FileParsers::MolFromMolDataStream(std::istream&, unsigned int&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 8# RDKit::v2::FileParsers::MolFromMolBlock(std::__cxx11::basic_string, std::allocator > const&, RDKit::v2::FileParsers::MolFileParserParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 9# 0x000000000006201F in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 12# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 13# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 14# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 15# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 16# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 17# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 18# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] atom 3 has a negative isotope value. line: 15 83: [09:21:50] Ignoring invalid chirality label: '2_bad_chirality' 83: [09:21:50] 83: 83: **** 83: Pre-condition Violation 83: no input stream 83: Violation occurred on line 562 in file ./Code/GraphMol/FileParsers/MaeMolSupplier.cpp 83: Failed Expression: dp_sInStream 83: ---------- 83: Stacktrace: 83: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 83: 2# RDKit::v2::FileParsers::MaeMolSupplier::init() in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 3# RDKit::v2::FileParsers::MaeMolSupplier::reset() in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFileParsers.so.1 83: 4# 0x00000000000A772D in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 5# 0x000000000010E27C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 6# 0x000000000010F872 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 7# 0x000000000010FCDA in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 8# 0x00000000000E2131 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 9# 0x00000000000E242C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 10# 0x00000000000529EE in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 83: 13# 0x0000000000052A31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/fileParsersCatchTest 83: ---------- 83: **** 83: 83: [09:21:50] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 83: [09:21:50] 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.[09:21:50] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 83: [09:21:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 83: [09:21:50] Warning: molecule is tagged as 3D, but all Z coords are zero and 2D stereo markers have been found, marking the mol as 2D. 83: [09:21:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 83: [09:21:50] The 2 defining bonds for an atropisomer are co-planar - atoms are: 17 21 52: Randomness seeded to: 1480644654 52: [09:21:50] Conflicting single bond directions around double bond at index 8. 52: [09:21:50] BondStereo set to STEREONONE and single bond directions set to NONE. 52: =============================================================================== 52: All tests passed (12855 assertions in 17 test cases) 52: 78/254 Test #52: canonTestsCatch ........................ Passed 6.35 sec test 84 Start 84: macromolsCatchTest 84: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/macromolsCatchTest 84: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 84: Test timeout computed to be: 7200 84: Randomness seeded to: 1598768845 84: [09:21:53] 3D constraint information in mol block ignored at line 46 84: [09:21:53] 3D constraint information in mol block ignored at line 46 84: [09:21:53] 3D constraint information in mol block ignored at line 58 84: [09:21:53] 3D constraint information in mol block ignored at line 58 84: [09:21:53] 3D constraint information in mol block ignored at line 46 84: =============================================================================== 84: All tests passed (381 assertions in 3 test cases) 84: 79/254 Test #84: macromolsCatchTest ..................... Passed 2.10 sec test 85 Start 85: testPropertyLists 85: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/testPropertyLists 85: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 85: Test timeout computed to be: 7200 85: Randomness seeded to: 2085166453 85: [09:21:53] Property list atom.iprop.TooLong has incompatible size, 5 elements found; expecting 3. Ignoring it. 85: =============================================================================== 85: All tests passed (115 assertions in 4 test cases) 85: 80/254 Test #85: testPropertyLists ...................... Passed 0.02 sec test 86 Start 86: XYZFileParserCatchTest 86: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/XYZFileParserCatchTest 86: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 86: Test timeout computed to be: 7200 86: Randomness seeded to: 2110449359 86: =============================================================================== 86: All tests passed (100 assertions in 2 test cases) 86: 81/254 Test #86: XYZFileParserCatchTest ................. Passed 0.02 sec test 87 Start 87: cdxmlParserCatchTest 87: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/cdxmlParserCatchTest 87: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 87: Test timeout computed to be: 7200 87: Randomness seeded to: 1106146454 87: [09:21:53] Invalid or missing fragment id from CDXML fragment, assigning new one... 87: [09:21:53] Explicit valence for atom # 3 N, 4, is greater than permitted 87: [09:21:53] CDXMLParser: failed sanitizing skipping fragment 32 87: [09:21:53] Bad bond in CDXML skipping fragment 58... 87: [09:21:53] Invalid or missing fragment id from CDXML fragment, assigning new one... 87: [09:21:53] Bad bond in CDXML skipping fragment 58... 87: [09:21:53] WARNING: not removing hydrogen atom without neighbors 87: [09:21:53] WARNING: not removing hydrogen atom without neighbors 87: [09:21:53] WARNING: not removing hydrogen atom without neighbors 87: [09:21:53] WARNING: not removing hydrogen atom without neighbors 87: [09:21:53] WARNING: not removing hydrogen atom without neighbors 87: [09:21:53] WARNING: not removing hydrogen atom without neighbors 87: [09:21:53] WARNING: not removing hydrogen atom without neighbors 87: [09:21:53] WARNING: not removing hydrogen atom without neighbors 87: [09:21:53] WARNING: not removing hydrogen atom without neighbors 87: [09:21:53] WARNING: not removing hydrogen atom without neighbors 87: [09:21:53] CDXMLParser: Schema 80180 step 80181 ReactionStepAgents reaction fragment 64603 not found in document. 87: [09:21:53] Incomplete atom labelling, cannot make bond 87: [09:21:53] Incomplete atom labelling, cannot make bond 87: [09:21:53] Incomplete atom labelling, cannot make bond 87: [09:21:53] Failed to parse XML fragment 5 node: n attribute: id: mydoghasfleas 87: [09:21:53] Failed to parse XML fragment 5 node: n attribute: id: mydoghasfleas 87: [09:21:53] Failed to parse XML fragment 5 node: b attribute: Order: slartibartfast 87: [09:21:53] Failed to parse XML fragment 5 node: b attribute: Order: 5 87: [09:21:53] Invalid or missing fragment id from CDXML fragment, assigning new one... 87: =============================================================================== 87: All tests passed (264 assertions in 7 test cases) 87: 82/254 Test #87: cdxmlParserCatchTest ................... Passed 0.07 sec test 88 Start 88: molfileStereoCatchTest 88: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/molfileStereoCatchTest 88: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 88: Test timeout computed to be: 7200 77: [09:21:53] Finished: testSmiCorrectness() 77: [09:21:53] ----------------------------------------- 77: 77: [09:21:53] 77: ----------------------------------------- 88: Randomness seeded to: 923747870 88: [09:21:53] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 88: [09:21:53] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 88: [09:21:53] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 88: [09:21:53] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 2 ignored. 77: [09:21:53] Spurious data before the first property will be ignored 77: [09:21:53] Property will be truncated after the first blank line 77: [09:21:53] Property will be truncated after the first blank line 77: [09:21:53] Property will be truncated after the first blank line 88: =============================================================================== 88: All tests passed (178 assertions in 7 test cases) 88: 83/254 Test #88: molfileStereoCatchTest ................. Passed 0.02 sec test 89 Start 89: connectTheDotsTest 89: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/connectTheDotsTest 89: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 89: Test timeout computed to be: 7200 89: Randomness seeded to: 171432960 89: [09:21:53] WARNING: not removing hydrogen atom without neighbors 89: [09:21:53] WARNING: not removing hydrogen atom without neighbors 89: [09:21:53] WARNING: not removing hydrogen atom without neighbors 89: [09:21:53] WARNING: not removing hydrogen atom without neighbors 89: =============================================================================== 89: All tests passed (18 assertions in 2 test cases) 89: 84/254 Test #89: connectTheDotsTest ..................... Passed 0.02 sec test 90 Start 90: v2MolSuppliers 90: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/v2MolSuppliers 90: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 90: Test timeout computed to be: 7200 90: Randomness seeded to: 3600899992 90: [09:21:53] Ignoring invalid chirality label: '12_R_1_3_4_5' 90: [09:21:53] Ignoring invalid chirality label: '12_ANR_1_3_4_15' 90: [09:21:53] Ignoring invalid chirality label: '2_S_1_3_4' 90: [09:21:53] Ignoring invalid chirality label: '2_ANS_1_3_4_5_2' 90: =============================================================================== 90: All tests passed (24 assertions in 6 test cases) 90: 85/254 Test #90: v2MolSuppliers ......................... Passed 0.02 sec test 91 Start 91: v2FileParsersCatchTest 91: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/v2FileParsersCatchTest 91: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 91: Test timeout computed to be: 7200 91: Randomness seeded to: 1075693508 91: =============================================================================== 91: All tests passed (9 assertions in 2 test cases) 91: 86/254 Test #91: v2FileParsersCatchTest ................. Passed 0.02 sec test 92 Start 92: atropisomersCatch 92: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/atropisomersCatch 92: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 92: Test timeout computed to be: 7200 92: Randomness seeded to: 543804541 92: [09:21:53] The 2 defining bonds for an atropisomer are co-planar - atoms are: 3 5 92: [09:21:53] The 2 defining bonds for an atropisomer are co-planar - atoms are: 3 5 92: =============================================================================== 92: All tests passed (88 assertions in 3 test cases) 92: 87/254 Test #92: atropisomersCatch ...................... Passed 0.02 sec test 93 Start 93: multithreadedSupplierCatchTest 93: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/multithreadedSupplierCatchTest 93: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers 93: Test timeout computed to be: 7200 77: [09:21:53] Finished: testSDCorrectness() 77: [09:21:53] ----------------------------------------- 77: 77: [09:21:53] 77: ----------------------------------------- 77: [09:21:53] Finished: testThrowSDF() 77: [09:21:53] ----------------------------------------- 77: 77: [09:21:53] 77: ----------------------------------------- 77: [09:21:53] Finished: testThrowSmiles() 77: [09:21:53] ----------------------------------------- 77: 88/254 Test #77: testMultithreadedMolSupplier ........... Passed 4.19 sec test 94 Start 94: testSubstructMatch 94: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct/testSubstructMatch 94: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct 94: Test timeout computed to be: 7200 93: Randomness seeded to: 3219830204 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Read callback exception: I'm Sorry Dave. I'm afraid I can't do that. 93: [09:21:53] Explicit valence for atom # 9 N, 5, is greater than permitted 94: testSubstructMatch: src/catch2/../catch2/internal/catch_output_redirect.hpp:40: void Catch::OutputRedirect::activate(): Assertion `!m_redirectActive && "redirect is already active"' failed. 94: Randomness seeded to: 2008043916 94: 94: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94: testSubstructMatch is a Catch2 v3.7.1 host application. 94: Run with -? for options 94: 94: ------------------------------------------------------------------------------- 94: testMultiThread 94: ------------------------------------------------------------------------------- 94: ./Code/GraphMol/Substruct/testSubstructMatch.cpp:549 94: ............................................................................... 94: 94: ./Code/GraphMol/Substruct/testSubstructMatch.cpp:549: FAILED: 94: {Unknown expression after the reported line} 94: due to a fatal error condition: 94: SIGABRT - Abort (abnormal termination) signal 94: 94: =============================================================================== 94: test cases: 11 | 10 passed | 1 failed 94: assertions: 70545 | 70544 passed | 1 failed 94: 94: testSubstructMatch: src/catch2/../catch2/internal/catch_output_redirect.hpp:40: void Catch::OutputRedirect::activate(): Assertion `!m_redirectActive && "redirect is already active"' failed. 89/254 Test #94: testSubstructMatch .....................Subprocess aborted***Exception: 0.15 sec testSubstructMatch: src/catch2/../catch2/internal/catch_output_redirect.hpp:40: void Catch::OutputRedirect::activate(): Assertion `!m_redirectActive && "redirect is already active"' failed. Randomness seeded to: 2008043916 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ testSubstructMatch is a Catch2 v3.7.1 host application. Run with -? for options ------------------------------------------------------------------------------- testMultiThread ------------------------------------------------------------------------------- ./Code/GraphMol/Substruct/testSubstructMatch.cpp:549 ............................................................................... ./Code/GraphMol/Substruct/testSubstructMatch.cpp:549: FAILED: {Unknown expression after the reported line} due to a fatal error condition: SIGABRT - Abort (abnormal termination) signal =============================================================================== test cases: 11 | 10 passed | 1 failed assertions: 70545 | 70544 passed | 1 failed testSubstructMatch: src/catch2/../catch2/internal/catch_output_redirect.hpp:40: void Catch::OutputRedirect::activate(): Assertion `!m_redirectActive && "redirect is already active"' failed. test 95 Start 95: substructTestCatch 95: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct/substructTestCatch 95: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Substruct 95: Test timeout computed to be: 7200 83: [09:21:53] Seen a second ABS stereo group on line 26 83: 83: [09:21:53] Atom 4 appears more than once in stereo group specification on line 27! 83: =============================================================================== 83: All tests passed (1700 assertions in 106 test cases) 83: 90/254 Test #83: fileParsersCatchTest ................... Passed 3.46 sec test 96 Start 96: testGenericGroups 96: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GenericGroups/testGenericGroups 96: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GenericGroups 96: Test timeout computed to be: 7200 93: [09:21:53] Explicit valence for atom # 3 Al, 6, is greater than permitted 93: [09:21:53] Explicit valence for atom # 4 Al, 6, is greater than permitted 93: [09:21:53] Explicit valence for atom # 10 Si, 6, is greater than permitted 93: [09:21:53] Explicit valence for atom # 2 O, 4, is greater than permitted 93: [09:21:53] Explicit valence for atom # 3 Al, 6, is greater than permitted 93: [09:21:53] Explicit valence for atom # 3 Be, 4, is greater than permitted 93: [09:21:53] Explicit valence for atom # 27 P, 6, is greater than permitted 95: Randomness seeded to: 1375723922 95: =============================================================================== 95: All tests passed (307 assertions in 15 test cases) 95: 91/254 Test #95: substructTestCatch ..................... Passed 0.15 sec test 97 Start 97: testReaction 97: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/testReaction 97: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions 97: Test timeout computed to be: 7200 97: smi: O=C1CNC(=O)CN1 97: 1: O=C1CNC(=O)CN1 97: 2: COOC 97: [09:21:53] SMARTS Parse Error: syntax error while parsing: [Q:1][C:2][C:3](=[O:4])[O:5] 97: [09:21:53] SMARTS Parse Error: check for mistakes around position 2: 97: [09:21:53] [Q:1][C:2][C:3](=[O:4])[O:5] 97: [09:21:53] ~^ 97: [09:21:53] 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]' 97: O=C1CNC(=O)CN1 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] mapped atoms in the reactants were not mapped in the products. 97: unmapped numbers are: 4 97: [09:21:53] atom 0 in product 0 has multiple charge specifications. 97: mass: 15.0001 97: Oc1ccccn1 97: Oc1ccc[nH]1 97: [09:21:53] SMARTS Parse Error: syntax error while parsing: ([C:1](=O)O.[C:2] 97: [09:21:53] SMARTS Parse Error: check for mistakes around position 1: 97: [09:21:53] ([C:1](=O)O.[C:2] 97: [09:21:53] ^ 97: [09:21:53] SMARTS Parse Error: Failed parsing SMARTS '([C:1](=O)O.[C:2]' for input: '([C:1](=O)O.[C:2]' 97: [09:21:53] SMARTS Parse Error: syntax error while parsing: ([C:2] 97: [09:21:53] SMARTS Parse Error: check for mistakes around position 1: 97: [09:21:53] ([C:2] 97: [09:21:53] ^ 97: [09:21:53] SMARTS Parse Error: Failed parsing SMARTS '([C:2]' for input: '([C:2]' 97: [09:21:53] SMARTS Parse Error: syntax error while parsing: [C:1](=O)O).[C:2] 97: [09:21:53] SMARTS Parse Error: check for mistakes around position 11: 97: [09:21:53] [C:1](=O)O).[C:2] 97: [09:21:53] ~~~~~~~~~~^ 97: [09:21:53] SMARTS Parse Error: Failed parsing SMARTS '[C:1](=O)O).[C:2]' for input: '[C:1](=O)O).[C:2]' 97: [09:21:53] SMARTS Parse Error: syntax error while parsing: [C:2]) 97: [09:21:53] SMARTS Parse Error: check for mistakes around position 6: 97: [09:21:53] [C:2]) 97: [09:21:53] ~~~~~^ 97: [09:21:53] SMARTS Parse Error: Failed parsing SMARTS '[C:2])' for input: '[C:2])' 97: [09:21:53] SMILES Parse Error: syntax error while parsing: [Q:1][C:2][C:3](=[O:4])[O:5] 97: [09:21:53] SMILES Parse Error: check for mistakes around position 2: 97: [09:21:53] [Q:1][C:2][C:3](=[O:4])[O:5] 97: [09:21:53] ~^ 97: [09:21:53] 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]' 97: [09:21:53] reactant 2 has no mapped atoms. 97: [09:21:53] >> Atoms within one molecule have different RXN roles. 97: [09:21:53] >> Fragment 0 not included in the reaction, atoms do not have a correct RXN role. 97: [09:21:53] SMARTS Parse Error: syntax error while parsing: ([C:1][C:2] 97: [09:21:53] SMARTS Parse Error: check for mistakes around position 1: 97: [09:21:53] ([C:1][C:2] 97: [09:21:53] ^ 97: [09:21:53] SMARTS Parse Error: Failed parsing SMARTS '([C:1][C:2]' for input: '([C:1][C:2]' 97: [09:21:53] SMARTS Parse Error: syntax error while parsing: ([C:2] 97: [09:21:53] SMARTS Parse Error: check for mistakes around position 1: 97: [09:21:53] ([C:2] 97: [09:21:53] ^ 97: [09:21:53] SMARTS Parse Error: Failed parsing SMARTS '([C:2]' for input: '([C:2]' 97: [09:21:53] SMARTS Parse Error: syntax error while parsing: [C:1][C:2]) 97: [09:21:53] SMARTS Parse Error: check for mistakes around position 11: 97: [09:21:53] [C:1][C:2]) 97: [09:21:53] ~~~~~~~~~~^ 97: [09:21:53] SMARTS Parse Error: Failed parsing SMARTS '[C:1][C:2])' for input: '[C:1][C:2])' 97: [09:21:53] SMARTS Parse Error: syntax error while parsing: [C:1]).[C:2] 97: [09:21:53] SMARTS Parse Error: check for mistakes around position 6: 97: [09:21:53] [C:1]).[C:2] 97: [09:21:53] ~~~~~^ 97: [09:21:53] SMARTS Parse Error: Failed parsing SMARTS '[C:1]).[C:2]' for input: '[C:1]).[C:2]' 97: [09:21:53] reactant 0 has no mapped atoms. 97: [09:21:53] reactant 1 has no mapped atoms. 97: [09:21:53] reactant 3 has no mapped atoms. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: [09:21:53] product atom-mapping number 5 found multiple times. 97: [09:21:53] product atom-mapping number 6 found multiple times. 97: [09:21:53] product atom-mapping number 7 found multiple times. 97: [09:21:53] product atom-mapping number 8 found multiple times. 97: [09:21:53] product atom-mapping number 12 found multiple times. 97: [09:21:53] product atom-mapping number 9 found multiple times. 97: [09:21:53] product atom-mapping number 10 found multiple times. 97: [09:21:53] product atom-mapping number 11 found multiple times. 97: [09:21:53] reactant 0 has no mapped atoms. 97: [09:21:53] reactant 1 has no mapped atoms. 97: [09:21:53] reactant 3 has no mapped atoms. 97: [09:21:53] reactant atom-mapping number 19 found multiple times. 97: [09:21:53] reactant atom-mapping number 25 found multiple times. 97: [09:21:53] reactant atom-mapping number 20 found multiple times. 97: [09:21:53] reactant atom-mapping number 21 found multiple times. 97: [09:21:53] reactant atom-mapping number 22 found multiple times. 97: [09:21:53] reactant atom-mapping number 23 found multiple times. 97: [09:21:53] reactant atom-mapping number 24 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: F[C@@](Cl)(Br)ONO[C@](F)(Cl)Br 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: F[C@](Cl)(Br)ONO[C@](F)(Cl)Br 97: [09:21:53] product atom-mapping number 5 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: [09:21:53] product atom-mapping number 5 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: F[C@@](Cl)(Br)ONO[C@](F)(Cl)Br 97: [09:21:53] product atom-mapping number 5 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: [09:21:53] product atom-mapping number 5 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: F[C@](Cl)(Br)ONO[C@](F)(Cl)Br 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: F[C@@](Cl)(Br)O[C@](F)(Cl)Br 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: F[C@](Cl)(Br)O[C@](F)(Cl)Br 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 4 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] mapped atoms in the reactants were not mapped in the products. 97: unmapped numbers are: 4 97: [09:21:53] product atom-mapping number 3 found multiple times. 97: [09:21:53] product atom-mapping number 2 found multiple times. 97: [09:21:53] product atom-mapping number 1 found multiple times. 97: [09:21:53] mapped atoms in the reactants were not mapped in the products. 97: unmapped numbers are: 4 97: [09:21:53] product atom-mapping number 6 not found in reactants. 97: [09:21:53] product atom-mapping number 7 not found in reactants. 97: [09:21:53] product atom-mapping number 8 not found in reactants. 97: [09:21:53] product atom-mapping number 7 not found in reactants. 97: [09:21:53] product atom-mapping number 8 not found in reactants. 97: [09:21:53] product atom-mapping number 9 not found in reactants. 97: [09:21:53] product atom-mapping number 10 not found in reactants. 97: [09:21:53] mapped atoms in the reactants were not mapped in the products. 97: unmapped numbers are: 6 97: [09:21:53] product atom-mapping number 7 not found in reactants. 97: [09:21:53] product atom-mapping number 8 not found in reactants. 97: [09:21:53] product atom-mapping number 9 not found in reactants. 97: [09:21:53] product atom-mapping number 10 not found in reactants. 97: [09:21:53] mapped atoms in the reactants were not mapped in the products. 97: unmapped numbers are: 6 97: 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] 97: 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] 97: [09:21:53] mapped atoms in the reactants were not mapped in the products. 97: unmapped numbers are: 7 8 9 10 11 12 13 14 15 16 93: [09:21:53] Explicit valence for atom # 9 N, 5, is greater than permitted 96: Randomness seeded to: 1498760283 96: =============================================================================== 96: All tests passed (11480 assertions in 38 test cases) 96: 92/254 Test #96: testGenericGroups ...................... Passed 0.19 sec test 98 Start 98: testReactionFingerprints 98: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/testReactionFingerprints 98: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions 98: Test timeout computed to be: 7200 97: [09:21:53] product atom-mapping number 17 not found in reactants. 97: [09:21:53] product atom-mapping number 18 not found in reactants. 97: [09:21:53] mapped atoms in the reactants were not mapped in the products. 97: unmapped numbers are: 12 98: [09:21:53] ------------------------------------- 98: [09:21:53] Test Reaction StructuralFingerprint 98: [09:21:53] ------------------------------------- 98: [09:21:53] Test Reaction DifferenceFingerprint 93/254 Test #98: testReactionFingerprints ............... Passed 0.02 sec test 99 Start 99: testEnumeration 99: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/testEnumeration 99: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions 99: Test timeout computed to be: 7200 93: [09:21:53] Explicit valence for atom # 3 Al, 6, is greater than permitted 97: [09:21:53] Reaction has explicit hydrogens, reactants will need explicit hydrogens (addHs) 97: [09:21:53] Reaction has explicit hydrogens, reactants will need explicit hydrogens (addHs) 97: 97: [09:21:53] Mismatched potential rlabels: 1 unmapped reactant dummy atom rlabels,0 unmappped product dummy atom rlabels 97: ------------- 97: CCOc1ccccc1 93: [09:21:53] Explicit valence for atom # 4 Al, 6, is greater than permitted 93: [09:21:53] Explicit valence for atom # 10 Si, 6, is greater than permitted 99: 30000000 30000000 97: [09:21:53] reactant 0 has no mapped atoms. 97: [09:21:53] product 0 has no mapped atoms. 97: [09:21:53] WARNING: neither stereo atoms nor CIP codes found for double bond. Stereochemistry info will not be propagated to product. 94/254 Test #97: testReaction ........................... Passed 0.18 sec test 100 Start 100: rxnTestCatch 100: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/rxnTestCatch 100: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions 100: Test timeout computed to be: 7200 93: [09:21:53] Explicit valence for atom # 2 O, 4, is greater than permitted 93: [09:21:53] Explicit valence for atom # 3 Al, 6, is greater than permitted 93: [09:21:53] Explicit valence for atom # 3 Be, 4, is greater than permitted 93: [09:21:53] Explicit valence for atom # 27 P, 6, is greater than permitted 93: =============================================================================== 93: All tests passed (21562 assertions in 3 test cases) 93: 95/254 Test #93: multithreadedSupplierCatchTest ......... Passed 0.53 sec test 101 Start 101: pyChemReactions 101: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Wrap/testReactionWrapper.py" 101: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/Wrap 101: Test timeout computed to be: 7200 100: Randomness seeded to: 3284947612 100: [09:21:53] atom 0 in product 0 has multiple charge specifications. 100: [09:21:53] Found a SCD/SED line with missing/empty SDT specification at line 34 100: [09:21:53] Found a SCD/SED line with missing/empty SDT specification at line 36 100: [09:21:53] Found a SCD/SED line with missing/empty SDT specification at line 38 100: [09:21:53] Found a SCD/SED line with missing/empty SDT specification at line 40 100: [09:21:53] Found a SCD/SED line with missing/empty SDT specification at line 42 100: [09:21:53] Found a SCD/SED line with missing/empty SDT specification at line 87 100: [09:21:53] Found a SCD/SED line with missing/empty SDT specification at line 89 100: [09:21:53] Found a SCD/SED line with missing/empty SDT specification at line 91 100: [09:21:53] Found a SCD/SED line with missing/empty SDT specification at line 93 100: [09:21:53] Found a SCD/SED line with missing/empty SDT specification at line 95 100: [09:21:53] mapped atoms in the reactants were not mapped in the products. 100: unmapped numbers are: 2 100: [09:21:53] mapped atoms in the reactants were not mapped in the products. 100: unmapped numbers are: 2 100: [09:21:53] SMARTS Parse Error: unclosed ring for input: 'CC1' 100: [09:21:53] SMILES Parse Error: unclosed ring for input: 'CC1' 100: [09:21:53] mapped atoms in the reactants were not mapped in the products. 100: unmapped numbers are: 2 100: [09:21:53] product atom-mapping number 2 not found in reactants. 100: [09:21:53] mapped atoms in the reactants were not mapped in the products. 100: unmapped numbers are: 2 100: [09:21:53] product atom-mapping number 2 not found in reactants. 100: [09:21:53] CX Extensions: Substance group hierarchy is not always preserved. 100: [09:21:53] CX Extensions: Substance group hierarchy is not always preserved. 100: [09:21:53] reactant 0 has no mapped atoms. 100: [09:21:53] product 0 has no mapped atoms. 100: [09:21:53] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 100: [09:21:53] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 100: [09:21:53] Explicit valence for atom # 1 O, 5, is greater than permitted 100: =============================================================================== 100: All tests passed (722 assertions in 30 test cases) 100: 96/254 Test #100: rxnTestCatch ........................... Passed 0.05 sec test 102 Start 102: pyChemReactionEnumerations 102: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Wrap/testEnumerations.py" 102: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/Wrap 102: Test timeout computed to be: 7200 102: [09:21:53] == testCartesianProduct 102: .[09:21:53] == testEnumerateLibrary 102: /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Wrap/testEnumerations.py:266: ResourceWarning: unclosed file <_io.BufferedReader name='/build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/testData/enumeration.pickle'> 102: open(os.path.join(self.dataDir, "enumeration.pickle"), 'rb').read()) 102: ResourceWarning: Enable tracemalloc to get the object allocation traceback 101: ...[09:21:53] 101: 101: **** 101: Pre-condition Violation 101: RingInfo not initialized 101: Violation occurred on line 129 in file ./Code/GraphMol/RingInfo.cpp 101: Failed Expression: df_init 101: ---------- 101: Stacktrace: 101: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 101: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 101: 2# RDKit::RingInfo::numBondRings(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 101: 3# 0x00000000000EE740 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 101: 4# Queries::EqualityQuery::Match(RDKit::Bond const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 101: 5# Queries::AndQuery::Match(RDKit::Bond const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 101: 6# RDKit::bondCompat(RDKit::Bond const*, RDKit::Bond const*, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 7# boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::IsFeasiblePair(unsigned int, unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 9# 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 10# 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 11# 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 12# RDKit::detail::MatchSubqueries(RDKit::ROMol const&, Queries::Query*, RDKit::SubstructMatchParameters const&, std::map*, std::less, std::allocator*> > >&, std::vector >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 16# RDKit::SubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 17# RDKit::ReactionRunnerUtils::getReactantMatchesToTemplate(RDKit::ROMol const&, RDKit::ROMol const&, unsigned int, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemReactions.so.1 101: 18# 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemReactions.so.1 101: 19# RDKit::run_Reactants(RDKit::ChemicalReaction const&, std::vector, std::allocator > > const&, unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemReactions.so.1 101: 20# RDKit::ChemicalReaction::runReactants(std::vector, std::allocator > >, unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemReactions.so.1 101: 21# _object* RDKit::RunReactants(RDKit::ChemicalReaction*, boost::python::tuple, unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 101: 22# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 101: 23# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 101: 24# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 101: 25# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 101: 26# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 101: 27# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 101: 28# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 101: 29# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 101: 30# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 101: 31# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 101: 32# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 101: 33# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 101: 34# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 101: 35# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 101: 36# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 101: 37# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 101: 38# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 101: 39# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 101: 40# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 101: 41# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 101: 42# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 101: 43# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 101: 44# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 101: 45# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 101: 46# _PyObject_MakeTpCall in /usr/bin/python3 101: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 48# 0x00000000001DD0A7 in /usr/bin/python3 101: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 50# 0x00000000002A967B in /usr/bin/python3 101: 51# 0x000000000024191D in /usr/bin/python3 101: 52# _PyObject_MakeTpCall in /usr/bin/python3 101: 53# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 54# 0x00000000001DD0A7 in /usr/bin/python3 101: 55# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 56# 0x00000000002A967B in /usr/bin/python3 101: 57# 0x000000000024191D in /usr/bin/python3 101: 58# _PyObject_MakeTpCall in /usr/bin/python3 101: 59# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 60# 0x00000000001DD0A7 in /usr/bin/python3 101: 61# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 62# 0x00000000002A967B in /usr/bin/python3 101: 63# 0x000000000024191D in /usr/bin/python3 101: 64# _PyObject_MakeTpCall in /usr/bin/python3 101: 65# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 66# 0x00000000001AEB11 in /usr/bin/python3 101: 67# _PyObject_MakeTpCall in /usr/bin/python3 101: 68# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 69# PyEval_EvalCode in /usr/bin/python3 101: 70# 0x00000000002C1C44 in /usr/bin/python3 101: 71# 0x00000000002BEBDF in /usr/bin/python3 101: 72# 0x00000000002D0454 in /usr/bin/python3 101: 73# 0x00000000002CFEE9 in /usr/bin/python3 101: 74# 0x00000000002CFD1E in /usr/bin/python3 101: 75# Py_RunMain in /usr/bin/python3 101: 76# Py_BytesMain in /usr/bin/python3 101: 77# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 101: 78# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 101: 79# _start in /usr/bin/python3 101: ---------- 101: **** 101: 101: [09:21:53] 101: 101: **** 101: Pre-condition Violation 101: RingInfo not initialized 101: Violation occurred on line 129 in file ./Code/GraphMol/RingInfo.cpp 101: Failed Expression: df_init 101: ---------- 101: Stacktrace: 101: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 101: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 101: 2# RDKit::RingInfo::numBondRings(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 101: 3# 0x00000000000EE740 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 101: 4# Queries::EqualityQuery::Match(RDKit::Bond const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 101: 5# Queries::AndQuery::Match(RDKit::Bond const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 101: 6# RDKit::bondCompat(RDKit::Bond const*, RDKit::Bond const*, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 7# boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::IsFeasiblePair(unsigned int, unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 9# 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 10# 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 11# 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 12# RDKit::detail::MatchSubqueries(RDKit::ROMol const&, Queries::Query*, RDKit::SubstructMatchParameters const&, std::map*, std::less, std::allocator*> > >&, std::vector >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 16# RDKit::SubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 101: 17# RDKit::ReactionRunnerUtils::getReactantMatchesToTemplate(RDKit::ROMol const&, RDKit::ROMol const&, unsigned int, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemReactions.so.1 101: 18# 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemReactions.so.1 101: 19# RDKit::run_Reactants(RDKit::ChemicalReaction const&, std::vector, std::allocator > > const&, unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemReactions.so.1 101: 20# RDKit::ChemicalReaction::runReactants(std::vector, std::allocator > >, unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemReactions.so.1 101: 21# _object* RDKit::RunReactants(RDKit::ChemicalReaction*, boost::python::tuple, unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 101: 22# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 101: 23# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 101: 24# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 101: 25# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 101: 26# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 101: 27# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 101: 28# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 101: 29# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 101: 30# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 101: 31# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 101: 32# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 101: 33# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 101: 34# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 101: 35# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 101: 36# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 101: 37# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 101: 38# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 101: 39# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 101: 40# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 101: 41# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 101: 42# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 101: 43# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 101: 44# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 101: 45# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 101: 46# _PyObject_MakeTpCall in /usr/bin/python3 101: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 48# 0x00000000001DD0A7 in /usr/bin/python3 101: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 50# 0x00000000002A967B in /usr/bin/python3 101: 51# 0x000000000024191D in /usr/bin/python3 101: 52# _PyObject_MakeTpCall in /usr/bin/python3 101: 53# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 54# 0x00000000001DD0A7 in /usr/bin/python3 101: 55# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 56# 0x00000000002A967B in /usr/bin/python3 101: 57# 0x000000000024191D in /usr/bin/python3 101: 58# _PyObject_MakeTpCall in /usr/bin/python3 101: 59# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 60# 0x00000000001DD0A7 in /usr/bin/python3 101: 61# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 62# 0x00000000002A967B in /usr/bin/python3 101: 63# 0x000000000024191D in /usr/bin/python3 101: 64# _PyObject_MakeTpCall in /usr/bin/python3 101: 65# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 66# 0x00000000001AEB11 in /usr/bin/python3 101: 67# _PyObject_MakeTpCall in /usr/bin/python3 101: 68# _PyEval_EvalFrameDefault in /usr/bin/python3 101: 69# PyEval_EvalCode in /usr/bin/python3 101: 70# 0x00000000002C1C44 in /usr/bin/python3 101: 71# 0x00000000002BEBDF in /usr/bin/python3 101: 72# 0x00000000002D0454 in /usr/bin/python3 101: 73# 0x00000000002CFEE9 in /usr/bin/python3 101: 74# 0x00000000002CFD1E in /usr/bin/python3 101: 75# Py_RunMain in /usr/bin/python3 101: 76# Py_BytesMain in /usr/bin/python3 101: 77# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 101: 78# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 101: 79# _start in /usr/bin/python3 101: ---------- 101: **** 101: 102: ..[09:21:54] == testRGroupState 101: .........[09:21:54] stereo atoms in input cannot be mapped to output (atoms are no longer bonded) 101: [09:21:54] stereo atoms in input cannot be mapped to output (atoms are no longer bonded) 101: [09:21:54] stereo atoms in input cannot be mapped to output (atoms are no longer bonded) 101: [09:21:54] stereo atoms in input cannot be mapped to output (atoms are no longer bonded) 101: .[09:21:54] product atom-mapping number 1 found multiple times. 101: [09:21:54] product atom-mapping number 1 found multiple times. 102: .[09:21:54] == testRandomEnumerateAllBBsLibrary 102: ** [1, 1] 102: ** [0, 2] 102: ** [1, 0] 101: ................[09:21:54] mapped atoms in the reactants were not mapped in the products. 101: unmapped numbers are: 3 101: [09:21:54] mapped atoms in the reactants were not mapped in the products. 101: unmapped numbers are: 3 102: .[09:21:54] == testRandomEnumerateLibrary 101: .[09:21:54] mapped atoms in the reactants were not mapped in the products. 101: unmapped numbers are: 3 101: ..[09:21:54] reactant 2 has no mapped atoms. 101: [09:21:54] reactant 2 has no mapped atoms. 101: [09:21:54] product 1 has no mapped atoms. 102: .[09:21:54] == testRandomSample 102: .[09:21:54] == testRandomSampleAllBBs 101: ........[09:21:54] SMARTS Parse Error: syntax error while parsing: [C:1](=[O:2])Q 101: [09:21:54] SMARTS Parse Error: check for mistakes around position 14: 101: [09:21:54] [C:1](=[O:2])Q 101: [09:21:54] ~~~~~~~~~~~~~^ 101: [09:21:54] SMARTS Parse Error: Failed parsing SMARTS '[C:1](=[O:2])Q' for input: '[C:1](=[O:2])Q' 101: [09:21:54] SMARTS Parse Error: syntax error while parsing: [C:1](=[O:2])[N:3]Q 101: [09:21:54] SMARTS Parse Error: check for mistakes around position 19: 101: [09:21:54] [C:1](=[O:2])[N:3]Q 101: [09:21:54] ~~~~~~~~~~~~~~~~~~^ 101: [09:21:54] SMARTS Parse Error: Failed parsing SMARTS '[C:1](=[O:2])[N:3]Q' for input: '[C:1](=[O:2])[N:3]Q' 101: .[09:21:54] reactant atom-mapping number 1 found multiple times. 101: [09:21:54] product atom-mapping number 2 not found in reactants. 101: [09:21:54] mapped atoms in the reactants were not mapped in the products. 101: unmapped numbers are: 4 101: [09:21:54] product atom-mapping number 5 not found in reactants. 102: .[09:21:54] deprecated -- please use MatchOnlyAtRgroupsAdjustParams instead 102: [09:21:54] deprecated -- please use MatchOnlyAtRgroupsAdjustParams instead 102: .[09:21:54] == testRemoveBadMatches 102: .[09:21:54] == testTimings 101: ........../build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Wrap/testReactionWrapper.py:751: ResourceWarning: unclosed file <_io.BufferedReader name='/build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/testData/reaction1.no_metadata.png'> 101: png = open(fname, 'rb').read() 101: ResourceWarning: Enable tracemalloc to get the object allocation traceback 101: [09:21:54] Found a SCD/SED line with missing/empty SDT specification at line 34 101: [09:21:54] Found a SCD/SED line with missing/empty SDT specification at line 36 101: [09:21:54] Found a SCD/SED line with missing/empty SDT specification at line 38 101: [09:21:54] Found a SCD/SED line with missing/empty SDT specification at line 40 101: [09:21:54] Found a SCD/SED line with missing/empty SDT specification at line 42 101: [09:21:54] Found a SCD/SED line with missing/empty SDT specification at line 87 101: [09:21:54] Found a SCD/SED line with missing/empty SDT specification at line 89 101: [09:21:54] Found a SCD/SED line with missing/empty SDT specification at line 91 101: [09:21:54] Found a SCD/SED line with missing/empty SDT specification at line 93 101: [09:21:54] Found a SCD/SED line with missing/empty SDT specification at line 95 101: ..[09:21:54] SMARTS Parse Error: syntax error while parsing: boromicacid 101: [09:21:54] SMARTS Parse Error: check for mistakes around position 3: 101: [09:21:54] boromicacid 101: [09:21:54] ~~^ 101: [09:21:54] SMARTS Parse Error: Failed parsing SMARTS 'boromicacid' for input: 'boromicacid' 101: [09:21:54] SMARTS Parse Error: syntax error while parsing: carboxylicacid,acidchlroide 101: [09:21:54] SMARTS Parse Error: check for mistakes around position 3: 101: [09:21:54] carboxylicacid,acidchlroide 101: [09:21:54] ~~^ 101: [09:21:54] SMARTS Parse Error: Failed parsing SMARTS 'carboxylicacid,acidchlroide' for input: 'carboxylicacid,acidchlroide' 101: [09:21:54] SMARTS Parse Error: syntax error while parsing: carboxyliccaid,acidchloride 101: [09:21:54] SMARTS Parse Error: check for mistakes around position 3: 101: [09:21:54] carboxyliccaid,acidchloride 101: [09:21:54] ~~^ 101: [09:21:54] SMARTS Parse Error: Failed parsing SMARTS 'carboxyliccaid,acidchloride' for input: 'carboxyliccaid,acidchloride' 101: [09:21:54] reaction has no reactants 101: [09:21:54] reaction has no products 101: [09:21:54] initialization failed 101: [09:21:54] reaction has no reactants 101: [09:21:54] reaction has no products 101: .[09:21:54] SMARTS Parse Error: syntax error while parsing: boromicacid 101: [09:21:54] SMARTS Parse Error: check for mistakes around position 3: 101: [09:21:54] boromicacid 101: [09:21:54] ~~^ 101: [09:21:54] SMARTS Parse Error: Failed parsing SMARTS 'boromicacid' for input: 'boromicacid' 101: [09:21:54] SMARTS Parse Error: syntax error while parsing: carboxylicacid,acidchlroide 101: [09:21:54] SMARTS Parse Error: check for mistakes around position 3: 101: [09:21:54] carboxylicacid,acidchlroide 101: [09:21:54] ~~^ 101: [09:21:54] SMARTS Parse Error: Failed parsing SMARTS 'carboxylicacid,acidchlroide' for input: 'carboxylicacid,acidchlroide' 101: [09:21:54] SMARTS Parse Error: syntax error while parsing: carboxyliccaid,acidchloride 101: [09:21:54] SMARTS Parse Error: check for mistakes around position 3: 101: [09:21:54] carboxyliccaid,acidchloride 101: [09:21:54] ~~^ 101: [09:21:54] SMARTS Parse Error: Failed parsing SMARTS 'carboxyliccaid,acidchloride' for input: 'carboxyliccaid,acidchloride' 101: [09:21:54] reaction has no reactants 101: [09:21:54] reaction has no products 101: [09:21:54] initialization failed 101: [09:21:54] reaction has no reactants 101: [09:21:54] reaction has no products 101: . 101: ---------------------------------------------------------------------- 101: Ran 55 tests in 0.081s 101: 101: OK 101: ******************************************** 101: /build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/testData/AmideBond.rxn 101: 97/254 Test #101: pyChemReactions ........................ Passed 0.31 sec test 103 Start 103: pyChemReactionSanitize 103: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/ChemReactions/Wrap/testSanitize.py" 103: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/Wrap 103: Test timeout computed to be: 7200 5: Randomness seeded to: 4093160543 5: =============================================================================== 5: All tests passed (120009 assertions in 2 test cases) 5: 98/254 Test #5: testConcurrentQueue .................... Passed 11.57 sec test 104 Start 104: testChemTransforms 104: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/testChemTransforms 104: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms 104: Test timeout computed to be: 7200 104: 1 smi: CC 104: 1 smi: CC 104: 2 smi: CCO[C@H](N)P 104: 2 smi: CC 104: replaceSub smi1:CCP(CC)[C@@H](N)O 104: replaceSub smi1:CCNCC 104: sidechains chiral=true smi1;;; [1*]P([2*])[C@H](N)O 104: sidechains chiral=false smi1;;; [1*]P([2*])[C@H](N)O 104: [09:21:54] SMARTS Parse Error: syntax error while parsing: bar 104: [09:21:54] SMARTS Parse Error: check for mistakes around position 3: 104: [09:21:54] bar 104: [09:21:54] ~~^ 104: [09:21:54] SMARTS Parse Error: Failed parsing SMARTS 'bar' for input: 'bar' 99/254 Test #104: testChemTransforms ..................... Passed 0.04 sec test 105 Start 105: chemTransformsTestCatch 105: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms 105: Test timeout computed to be: 7200 103: .[09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: .[09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: () 103: ******************************************** 103: $RXN 103: 103: RDKit 103: 103: 2 1 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 1 0 0 0 0 0 0999 V2000 103: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 103: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 103: 1 2 1 0 103: M RGP 1 2 1 103: V 1 halogen.bromine.aromatic 103: V 2 [*:1] 103: M STY 1 1 DAT 103: M SAL 1 1 1 103: M SED 1 [#35&$([Br&$(Br-&!@c)])] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 4 3 0 1 0 0 0 0 0 0999 V2000 103: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 103: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 2 3 1 0 103: 1 2 1 0 103: 2 4 1 0 103: M RGP 1 1 2 103: V 1 [*:2] 103: V 2 boronicacid 103: M STY 1 1 DAT 103: M SAL 1 1 2 103: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 0 0 0 0 0 0 0999 V2000 103: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 103: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 103: 1 2 1 0 103: M RGP 2 1 1 2 2 103: V 1 [*:1] 103: V 2 [*:2] 103: M END 103: 103: >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 103: $RXN 103: 103: RDKit 103: 103: 2 1 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 1 0 0 0 0 0 0999 V2000 103: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 103: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 103: 1 2 1 0 103: M RGP 1 2 1 103: V 1 halogen.bromine.aromatic 103: V 2 [*:1] 103: M STY 1 1 DAT 103: M SAL 1 1 1 103: M SED 1 [#35&$([Br&$(Br-&!@c)])] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 4 3 0 1 0 0 0 0 0 0999 V2000 103: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 103: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 2 3 1 0 103: 1 2 1 0 103: 2 4 1 0 103: M RGP 1 1 2 103: V 1 [*:2] 103: V 2 boronicacid 103: M STY 1 1 DAT 103: M SAL 1 1 2 103: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 0 0 0 0 0 0 0999 V2000 103: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 103: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 103: 1 2 1 0 103: M RGP 2 1 1 2 2 103: V 1 [*:1] 103: V 2 [*:2] 103: M END 103: 103: ******************************************** 103: $RXN 103: 103: RDKit 103: 103: 2 1 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 1 0 0 0 0 0 0999 V2000 103: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 103: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 0 0 0 103: 1 2 1 0 103: M RGP 1 2 1 103: V 1 halogen.bromine.aromatic 103: V 2 * 103: M STY 1 1 DAT 103: M SAL 1 1 1 103: M SED 1 [#35&$([Br&$(Br-&!@c)])] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 4 3 0 1 0 0 0 0 0 0999 V2000 103: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 2 3 1 0 103: 1 2 1 0 103: 2 4 1 0 103: M RGP 1 1 2 103: V 1 * 103: V 2 boronicacid 103: M STY 1 1 DAT 103: M SAL 1 1 2 103: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 0 0 0 0 0 0 0999 V2000 103: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 0 0 0 103: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 0 0 0 103: 1 2 1 0 103: M RGP 2 1 1 2 2 103: V 1 * 103: V 2 * 103: M END 103: 103: >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 103: $RXN 103: 103: RDKit 103: 103: 2 1 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 1 0 0 0 0 0 0999 V2000 103: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 103: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 103: 1 2 1 0 103: M RGP 1 2 1 103: V 1 halogen.bromine.aromatic 103: V 2 [*:1] 103: M STY 1 1 DAT 103: M SAL 1 1 1 103: M SED 1 [#35&$([Br&$(Br-&!@c)])] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 4 3 0 1 0 0 0 0 0 0999 V2000 103: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 103: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 2 3 1 0 103: 1 2 1 0 103: 2 4 1 0 103: M RGP 1 1 2 103: V 1 [*:2] 103: V 2 boronicacid 103: M STY 1 1 DAT 103: M SAL 1 1 2 103: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 0 0 0 0 0 0 0999 V2000 103: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 103: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 103: 1 2 1 0 103: M RGP 2 1 1 2 2 103: V 1 [*:1] 103: V 2 [*:2] 103: M END 103: 103: ******************************************** 103: $RXN 103: 103: RDKit 103: 103: 2 1 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 1 0 0 0 0 0 0999 V2000 103: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 103: -3.9875 -7.4667 0.0000 R1 0 0 0 0 0 0 0 0 0 0 0 0 103: 1 2 1 0 103: M ISO 1 2 1 103: V 1 halogen.bromine.aromatic 103: M STY 1 1 DAT 103: M SAL 1 1 1 103: M SED 1 [#35&$([Br&$(Br-&!@c)])] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 4 3 0 1 0 0 0 0 0 0999 V2000 103: 3.4375 -7.7917 0.0000 R2 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 2 3 1 0 103: 1 2 1 0 103: 2 4 1 0 103: M ISO 1 1 2 103: V 2 boronicacid 103: M STY 1 1 DAT 103: M SAL 1 1 2 103: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 0 0 0 0 0 0 0999 V2000 103: 11.2667 -7.3417 0.0000 R1 0 0 0 0 0 0 0 0 0 0 0 0 103: 11.9811 -6.9292 0.0000 R2 0 0 0 0 0 0 0 0 0 0 0 0 103: 1 2 1 0 103: M ISO 2 1 1 2 2 103: M END 103: 103: >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 103: $RXN 103: 103: RDKit 103: 103: 2 1 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 1 0 0 0 0 0 0999 V2000 103: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 103: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 103: 1 2 1 0 103: M RGP 1 2 1 103: V 1 halogen.bromine.aromatic 103: V 2 [*:1] 103: M STY 1 1 DAT 103: M SAL 1 1 1 103: M SED 1 [#35&$([Br&$(Br-&!@c)])] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 4 3 0 1 0 0 0 0 0 0999 V2000 103: 3.4375 -7.7917 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 103: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 2 3 1 0 103: 1 2 1 0 103: 2 4 1 0 103: M RGP 1 1 2 103: V 1 [*:2] 103: V 2 boronicacid 103: M STY 1 1 DAT 103: M SAL 1 1 2 103: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 0 0 0 0 0 0 0999 V2000 103: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 103: 11.9811 -6.9292 0.0000 R# 0 0 0 0 0 0 0 0 0 2 0 0 103: 1 2 1 0 103: M RGP 2 1 1 2 2 103: V 1 [*:1] 103: V 2 [*:2] 103: M END 103: 103: ******************************************** 103: $RXN 103: 103: RDKit 103: 103: 2 1 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 1 0 0 0 0 0 0999 V2000 103: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 103: -3.9875 -7.4667 0.0000 R1 0 0 0 0 0 0 0 0 0 0 0 0 103: 1 2 1 0 103: M ISO 1 2 1 103: V 1 halogen.bromine.aromatic 103: M STY 1 1 DAT 103: M SAL 1 1 1 103: M SED 1 [#35&$([Br&$(Br-&!@c)])] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 4 3 0 1 0 0 0 0 0 0999 V2000 103: 3.4375 -7.7917 0.0000 R3 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 2 3 1 0 103: 1 2 1 0 103: 2 4 1 0 103: M ISO 1 1 3 103: V 2 boronicacid 103: M STY 1 1 DAT 103: M SAL 1 1 2 103: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 0 0 0 0 0 0 0999 V2000 103: 11.2667 -7.3417 0.0000 R1 0 0 0 0 0 0 0 0 0 0 0 0 103: 11.9811 -6.9292 0.0000 R2 0 0 0 0 0 0 0 0 0 0 0 0 103: 1 2 1 0 103: M ISO 2 1 1 2 2 103: M END 103: [09:21:54] reactant 0 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] product 0 has no mapped atoms. 103: [09:21:54] Could not find RLabel mapping for atom: 0 in template: 1 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: [09:21:54] reactant 1 has no mapped atoms. 103: .. 103: ---------------------------------------------------------------------- 103: Ran 4 tests in 0.009s 103: 103: OK 103: 103: >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 103: $RXN 103: 103: RDKit 103: 103: 2 1 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 1 0 0 0 0 0 0999 V2000 103: -3.2730 -7.0542 0.0000 Br 0 0 0 0 0 0 0 0 0 0 0 0 103: -3.9875 -7.4667 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 103: 1 2 1 0 103: M RGP 1 2 1 103: V 1 halogen.bromine.aromatic 103: V 2 [*:1] 103: M STY 1 1 DAT 103: M SAL 1 1 1 103: M SED 1 [#35&$([Br&$(Br-&!@c)])] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 4 3 0 1 0 0 0 0 0 0999 V2000 103: 3.4375 -7.7917 0.0000 R3 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.1520 -7.3792 0.0000 B 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.1520 -6.5542 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 4.8664 -7.7917 0.0000 O 0 0 0 0 0 0 0 0 0 0 0 0 103: 2 3 1 0 103: 1 2 1 0 103: 2 4 1 0 103: M ISO 1 1 3 103: V 2 boronicacid 103: M STY 1 1 DAT 103: M SAL 1 1 2 103: M SED 1 [#5&$([$(B-&!@[#6])](O)O)] 103: M END 103: $MOL 103: 103: RDKit 2D 103: 103: 2 1 0 0 0 0 0 0 0 0999 V2000 103: 11.2667 -7.3417 0.0000 R# 0 0 0 0 0 0 0 0 0 1 0 0 103: 11.9811 -6.9292 0.0000 R2 0 0 0 0 0 0 0 0 0 0 0 0 103: 1 2 1 0 103: M ISO 1 2 2 103: M RGP 1 1 1 103: V 1 [*:1] 103: M END 103: 103: $RXN Failed 105: Randomness seeded to: 1178871703 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] 105: 105: **** 105: Invariant Violation 105: molzip: bond info already exists for end atom with label:1 105: Violation occurred on line 567 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 105: Failed Expression: !bond.b 105: ---------- 105: Stacktrace: 105: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 4# 0x000000000003C3CF in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 5# 0x000000000009193C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 6# 0x0000000000092F32 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 7# 0x000000000009339A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 8# 0x0000000000065831 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 9# 0x0000000000065B2C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 10# 0x000000000002ED0E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 13# 0x000000000002ED51 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: ---------- 105: **** 105: 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] 105: 105: **** 105: Invariant Violation 105: molzip: bond info already exists for end atom with label:1 105: Violation occurred on line 567 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 105: Failed Expression: !bond.b 105: ---------- 105: Stacktrace: 105: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 4# 0x000000000003C3CF in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 5# 0x000000000009193C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 6# 0x0000000000092F32 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 7# 0x000000000009339A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 8# 0x0000000000065831 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 9# 0x0000000000065B2C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 10# 0x000000000002ED0E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 13# 0x000000000002ED51 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: ---------- 105: **** 105: 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] 105: 105: **** 105: Invariant Violation 105: molzip: bond info already exists for end atom with label:1 105: Violation occurred on line 567 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 105: Failed Expression: !bond.b 105: ---------- 105: Stacktrace: 105: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 4# 0x000000000003C3CF in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 5# 0x000000000009193C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 6# 0x0000000000092F32 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 7# 0x000000000009339A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 8# 0x0000000000065831 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 9# 0x0000000000065B2C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 10# 0x000000000002ED0E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 13# 0x000000000002ED51 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: ---------- 105: **** 105: 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] 105: 105: **** 105: Invariant Violation 105: molzip: bond info already exists for end atom with label:1 105: Violation occurred on line 567 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 105: Failed Expression: !bond.b 105: ---------- 105: Stacktrace: 105: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 4# 0x000000000003C3CF in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 5# 0x000000000009193C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 6# 0x0000000000092F32 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 7# 0x000000000009339A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 8# 0x0000000000065831 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 9# 0x0000000000065B2C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 10# 0x000000000002ED0E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 13# 0x000000000002ED51 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: ---------- 105: **** 105: 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] 105: 105: **** 105: Invariant Violation 105: molzip: bond info already exists for end atom with label:1 105: Violation occurred on line 567 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 105: Failed Expression: !bond.b 105: ---------- 105: Stacktrace: 105: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 4# 0x000000000003C3CF in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 5# 0x000000000009193C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 6# 0x0000000000092F32 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 7# 0x000000000009339A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 8# 0x0000000000065831 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 9# 0x0000000000065B2C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 10# 0x000000000002ED0E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 13# 0x000000000002ED51 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: ---------- 105: **** 105: 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] 105: 105: **** 105: Invariant Violation 105: molzip: bond info already exists for end atom with label:1 105: Violation occurred on line 567 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 105: Failed Expression: !bond.b 105: ---------- 105: Stacktrace: 105: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 4# 0x000000000003C3CF in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 5# 0x000000000009193C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 6# 0x0000000000092F32 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 7# 0x000000000009339A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 8# 0x0000000000065831 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 9# 0x0000000000065B2C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 10# 0x000000000002ED0E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 13# 0x000000000002ED51 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: ---------- 105: **** 105: 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] 105: 105: **** 105: Invariant Violation 105: molzip: bond info already exists for end atom with label:1 105: Violation occurred on line 567 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 105: Failed Expression: !bond.b 105: ---------- 105: Stacktrace: 105: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 4# 0x000000000003C3CF in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 5# 0x000000000009193C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 6# 0x0000000000092F32 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 7# 0x000000000009339A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 8# 0x0000000000065831 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 9# 0x0000000000065B2C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 10# 0x000000000002ED0E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 13# 0x000000000002ED51 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: ---------- 105: **** 105: 100/254 Test #103: pyChemReactionSanitize ................. Passed 0.19 sec 105: [09:21:54] Incomplete atom labelling, cannot make bond test 106 Start 106: tautomerQueryTestCatch 106: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery/tautomerQueryTestCatch 106: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery 106: Test timeout computed to be: 7200 105: [09:21:54] 105: 105: **** 105: Invariant Violation 105: molzip: bond info already exists for end atom with label:1 105: Violation occurred on line 567 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 105: Failed Expression: !bond.b 105: ---------- 105: Stacktrace: 105: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 4# 0x000000000003C3CF in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 5# 0x000000000009193C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 6# 0x0000000000092F32 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 7# 0x000000000009339A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 8# 0x0000000000065831 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 9# 0x0000000000065B2C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 10# 0x000000000002ED0E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 13# 0x000000000002ED51 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: ---------- 105: **** 105: 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] 105: 105: **** 105: Invariant Violation 105: molzip: bond info already exists for end atom with label:1 105: Violation occurred on line 567 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 105: Failed Expression: !bond.b 105: ---------- 105: Stacktrace: 105: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 4# 0x000000000003C3CF in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 5# 0x000000000009193C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 6# 0x0000000000092F32 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 7# 0x000000000009339A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 8# 0x0000000000065831 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 9# 0x0000000000065B2C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 10# 0x000000000002ED0E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 13# 0x000000000002ED51 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: ---------- 105: **** 105: 105: [09:21:54] Incomplete atom labelling, cannot make bond 105: [09:21:54] 105: 105: **** 105: Invariant Violation 105: molzip: bond info already exists for end atom with label:1 105: Violation occurred on line 567 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 105: Failed Expression: !bond.b 105: ---------- 105: Stacktrace: 105: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 4# 0x000000000003C3CF in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 5# 0x000000000009193C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 6# 0x0000000000092F32 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 7# 0x000000000009339A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 8# 0x0000000000065831 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 9# 0x0000000000065B2C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 10# 0x000000000002ED0E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 11# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 12# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 13# 0x000000000002ED51 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: ---------- 105: **** 105: 105: [09:21:54] 105: 105: **** 105: Invariant Violation 105: molzip: zipped Bond already exists, perhaps labels are duplicated 105: Violation occurred on line 145 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 105: Failed Expression: params.label == MolzipLabel::FragmentOnBonds || !a->getOwningMol().getBondBetweenAtoms(a->getIdx(), b->getIdx()) 105: ---------- 105: Stacktrace: 105: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 105: 2# 0x000000000005A017 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 4# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 5# RDKit::molzip(RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 105: 6# 0x000000000002FEC3 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 7# 0x000000000009193C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 8# 0x0000000000092F32 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 9# 0x000000000009339A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 10# 0x0000000000065831 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 11# 0x0000000000065B2C in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 12# 0x000000000002ED0E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: 13# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 14# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 105: 15# 0x000000000002ED51 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/chemTransformsTestCatch 105: ---------- 105: **** 105: 105: =============================================================================== 105: All tests passed (636 assertions in 13 test cases) 105: 101/254 Test #105: chemTransformsTestCatch ................ Passed 0.04 sec test 107 Start 107: pyTautomerQuery 107: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/TautomerQuery/Wrap/rough_test.py" 107: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap 107: Test timeout computed to be: 7200 106: Randomness seeded to: 4025118157 106: =============================================================================== 106: All tests passed (112 assertions in 14 test cases) 106: 102/254 Test #106: tautomerQueryTestCatch ................. Passed 0.09 sec test 108 Start 108: testSubgraphs1 108: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs/testSubgraphs1 108: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs 108: Test timeout computed to be: 7200 107: ..... 107: ---------------------------------------------------------------------- 107: Ran 5 tests in 0.017s 107: 107: OK 103/254 Test #107: pyTautomerQuery ........................ Passed 0.12 sec test 109 Start 109: testSubgraphs2 109: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs/testSubgraphs2 109: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs 109: Test timeout computed to be: 7200 109: Randomness seeded to: 2159109954 109: =============================================================================== 109: All tests passed (112 assertions in 5 test cases) 109: 104/254 Test #109: testSubgraphs2 ......................... Passed 0.01 sec test 110 Start 110: subgraphsCatch 110: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs/subgraphsCatch 110: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs 110: Test timeout computed to be: 7200 110: Randomness seeded to: 4082214186 110: --------- 110: =============================================================================== 110: All tests passed (11 assertions in 1 test case) 110: 105/254 Test #110: subgraphsCatch ......................... Passed 0.01 sec test 111 Start 111: filterCatalogTest 111: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog/filterCatalogTest 111: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog 111: Test timeout computed to be: 7200 111: Warning: molecule failed filter 111: Warning: molecule failed filter: reason hzone_phenol_A(479) 111: v = { 111: 0,23}, 111: 1,22}, 111: 2,20}, 111: 3,19}, 111: 4,25}, 111: 5,24}, 111: 6,18}, 111: 7,17}, 111: 8,16}, 111: 9,21}, 111: } 111: match = { 111: 0,23}, 111: 1,22}, 111: 2,20}, 111: 3,19}, 111: 4,25}, 111: 5,24}, 111: 6,18}, 111: 7,17}, 111: 8,16}, 111: 9,21}, 111: } 111: Warning: molecule failed filter 111: Warning: molecule failed filter: reason cyano_imine_B(17) 111: v = { 111: 0,11}, 111: 1,12}, 111: 2,13}, 111: 3,14}, 111: 4,15}, 111: 5,10}, 111: 6,9}, 111: 7,8}, 111: 8,7}, 111: 9,6}, 111: 10,5}, 111: 11,17}, 111: 12,16}, 111: } 111: match = { 111: 0,11}, 111: 1,12}, 111: 2,13}, 111: 3,14}, 111: 4,15}, 111: 5,10}, 111: 6,9}, 111: 7,8}, 111: 8,7}, 111: 9,6}, 111: 10,5}, 111: 11,17}, 111: 12,16}, 111: } 111: Warning: molecule failed filter 111: Warning: molecule failed filter: reason keto_keto_gamma(5) 111: v = { 111: 0,0}, 111: 1,1}, 111: 2,2}, 111: 3,4}, 111: 4,5}, 111: 5,6}, 111: 6,7}, 111: 7,8}, 111: 8,9}, 111: 9,14}, 111: 10,15}, 111: 11,16}, 111: } 111: match = { 111: 0,0}, 111: 1,1}, 111: 2,2}, 111: 3,4}, 111: 4,5}, 111: 5,6}, 111: 6,7}, 111: 7,8}, 111: 8,9}, 111: 9,14}, 111: 10,15}, 111: 11,16}, 111: } 106/254 Test #111: filterCatalogTest ...................... Passed 0.10 sec test 112 Start 112: pyFilterCatalog 112: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/FilterCatalog/Wrap/rough_test.py" 112: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap 112: Test timeout computed to be: 7200 102: . 102: ---------------------------------------------------------------------- 102: Ran 11 tests in 0.642s 102: 102: OK 102: True 102: == CartesianProductStrategy CartesianProductStrategy 102: 197 out of 300 102: 0 6 out of 10 102: 1 3 out of 5 102: 2 4 out of 6 102: 198 out of 300 102: 0 10 out of 10 102: 1 5 out of 5 102: 2 6 out of 6 102: Skipped 10000000 in 0.03261971473693848 seconds 102: Skipped 10000000 in 0.2575829029083252 seconds 102: Skipped 10000000 in 0.24523162841796875 seconds 107/254 Test #102: pyChemReactionEnumerations ............. Passed 0.83 sec test 113 Start 113: testFragCatalog 113: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 113: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog 113: Test timeout computed to be: 7200 113: 21 113: [09:21:54] 113: 113: **** 113: Invariant Violation 113: nonsense 113: Violation occurred on line 52 in file ./Code/GraphMol/FragCatalog/FragCatalogUtils.cpp 113: Failed Expression: token != tokens.end() 113: ---------- 113: Stacktrace: 113: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 113: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 113: 2# 0x00000000000172E9 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFragCatalog.so.1 113: 3# RDKit::readFuncGroups(std::istream&, int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFragCatalog.so.1 113: 4# 0x000000000000A3B6 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 113: 5# 0x0000000000007851 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 113: 6# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 113: 7# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 113: 8# 0x00000000000079C1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 113: ---------- 113: **** 113: 113: [09:21:54] 113: 113: **** 113: Invariant Violation 113: nonsense no new line 113: Violation occurred on line 52 in file ./Code/GraphMol/FragCatalog/FragCatalogUtils.cpp 113: Failed Expression: token != tokens.end() 113: ---------- 113: Stacktrace: 113: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 113: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 113: 2# 0x00000000000172E9 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFragCatalog.so.1 113: 3# RDKit::readFuncGroups(std::istream&, int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFragCatalog.so.1 113: 4# 0x000000000000A3B6 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 113: 5# 0x0000000000007851 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 113: 6# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 113: 7# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 113: 8# 0x00000000000079C1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 113: ---------- 113: **** 113: 113: [09:21:54] 113: 113: **** 113: Invariant Violation 113: nonsense with tab 113: Violation occurred on line 52 in file ./Code/GraphMol/FragCatalog/FragCatalogUtils.cpp 113: Failed Expression: token != tokens.end() 113: ---------- 113: Stacktrace: 113: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 113: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 113: 2# 0x00000000000172E9 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFragCatalog.so.1 113: 3# RDKit::readFuncGroups(std::istream&, int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitFragCatalog.so.1 113: 4# 0x000000000000A3B6 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 113: 5# 0x0000000000007851 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 113: 6# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 113: 7# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 113: 8# 0x00000000000079C1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/testFragCatalog 113: ---------- 113: **** 113: 108/254 Test #113: testFragCatalog ........................ Passed 0.29 sec test 114 Start 114: pyFragCatalog 114: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/FragCatalog/Wrap/rough_test.py" 114: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/Wrap 114: Test timeout computed to be: 7200 112: .............[09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: [09:21:54] SMILES Parse Error: syntax error while parsing: --- 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] --- 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES '---' for input: '---' 112: [09:21:54] dasfsadf 112: .[09:21:54] SMILES Parse Error: syntax error while parsing: mydoghasfleas 112: [09:21:54] SMILES Parse Error: check for mistakes around position 1: 112: [09:21:54] mydoghasfleas 112: [09:21:54] ^ 112: [09:21:54] SMILES Parse Error: Failed parsing SMILES 'mydoghasfleas' for input: 'mydoghasfleas' 112: ....... 112: ---------------------------------------------------------------------- 112: Ran 21 tests in 0.380s 112: 112: OK 112: (Five aromatic carbons And (Not any of Five aromatic carbons)) 112: (Five aromatic carbons Or (Not any of Five aromatic carbons)) 112: (Not (Five aromatic carbons And (Not any of Five aromatic carbons))) 112: ******************************************** 112: Testing: PAINS_A 2 112: ******************************************** 112: Testing: PAINS_B 4 112: ******************************************** 112: Testing: PAINS_C 8 112: ******************************************** 112: Testing: PAINS 14 112: (Not FilterMatcher) 112: Bar 112: Count 1 112: ******************************************** 112: {'Cl,Br,I'} 112: 1 112: 2 112: running 109/254 Test #112: pyFilterCatalog ........................ Passed 0.50 sec test 115 Start 115: testDescriptors 115: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testDescriptors 115: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 115: Test timeout computed to be: 7200 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test Crippen parameter acquisition. 115: [09:21:55] done 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test Crippen calculation. 114: ......... 114: ---------------------------------------------------------------------- 114: Ran 9 tests in 0.022s 114: 114: OK 115: [09:21:55] done 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test Issue262: problems with Crippen calculation from pickles. 115: [09:21:55] done 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test AMW calculation. 115: [09:21:55] done 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test Exact MW calculation. 115: [09:21:55] done 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test Labute ASA descriptors. 115: [09:21:55] done 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test TPSA descriptors. 110/254 Test #114: pyFragCatalog .......................... Passed 0.13 sec test 116 Start 116: testAUTOCORR2D 116: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testAUTOCORR2D 116: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 116: Test timeout computed to be: 7200 115: [09:21:55] done 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test Lipinski parameters. 116: [09:21:55] ---------------------------- 116: start test autocorr2D 115: [09:21:55] done 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test VSA descriptors. 115: [09:21:55] done 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test molecular formula calculation. 115: [09:21:55] done 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test Issue 3415534. 115: [09:21:55] done 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test Issue3433771: Bad definition for Crippen atom type O11. 115: [09:21:55] done 115: [09:21:55] ------------------------------------- 115: [09:21:55] Test multithreading 115: reading molecules 115: processing 115: launch :0 115: launch :1 115: launch :2 115: launch :3 116: [09:21:55] done 116: [09:21:55] ------------------------------------- 116: [09:21:55] Test Github #3806: NaNs from AUTOCORR2D descriptor 116: [09:21:55] done 111/254 Test #116: testAUTOCORR2D ......................... Passed 0.16 sec test 117 Start 117: testATF 117: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testATF 117: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 117: Test timeout computed to be: 7200 112/254 Test #117: testATF ................................ Passed 0.01 sec test 118 Start 118: testBCUT 118: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testBCUT 118: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 118: Test timeout computed to be: 7200 118: [09:21:55] ------------------------------------- 118: [09:21:55] Basic BCUT tests. 118: [09:21:55] done 118: [09:21:55] ------------------------------------- 118: [09:21:55] Larger BCUT tests. 118: [09:21:55] ------------------------------------- 118: [09:21:55] Test empty molecule BCUT. 113/254 Test #118: testBCUT ............................... Passed 0.26 sec test 119 Start 119: testEEM 119: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testEEM 119: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 119: Test timeout computed to be: 7200 119: =>start test EEM 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: 0 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: 100 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: 200 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: 300 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: 400 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: [09:21:55] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 119: Elapsed time: 0.293511 s 119: Errors:0 119: [09:21:55] test on : 500 molecules done 114/254 Test #119: testEEM ................................ Passed 0.31 sec test 120 Start 120: testPBF 120: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testPBF 120: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 120: Test timeout computed to be: 7200 120: [09:21:55] ------------------------------------- 120: [09:21:55] Basic PBF tests. 120: [09:21:55] done 120: [09:21:55] ------------------------------------- 120: [09:21:55] PBF edge cases. 120: [09:21:55] done 115/254 Test #120: testPBF ................................ Passed 0.10 sec test 121 Start 121: testRDFcustom 121: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testRDFcustom 121: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 121: Test timeout computed to be: 7200 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test Issue252: Bad definitions for Crippen atom types. 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test calculation of ChiVs. 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test calculation of ChiNs. 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test calculation of HallKierAlpha. 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test calculation of Kappa1. 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test calculation of Kappa2. 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test calculation of Kappa3. 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test Crippen atom type calculations. 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test ring descriptors 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test other count descriptors. 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test MQN 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test GitHub Issue 56. 115: [09:21:56] WARNING: not removing hydrogen atom without neighbors 115: [09:21:56] WARNING: not removing hydrogen atom without neighbors 115: [09:21:56] WARNING: not removing hydrogen atom without neighbors 115: [09:21:56] WARNING: not removing hydrogen atom without neighbors 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test Github92: Bad Crippen atom type for pyrrole H. 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test Github362: order dependence in Kier-Hall descriptors. 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test calculation of spiro and bridgehead counts. 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test Github694: ExactMolWt ignoring the mass of the electron 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Testing Properties and KitchenSink 115: [09:21:56] ---Caught keyerror (bad property name)--- 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test USR Descriptor 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test Github #1702: AUTOCORR2D.h not installed unless RDK_BUILD_DESCRIPTORS3D but is required 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test Github #1973: support P and S terms for TPSA calculation 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test Github #2948: Empty molecule has non-zero LabuteASA 115: [09:21:56] done 115: [09:21:56] ------------------------------------- 115: [09:21:56] Test Github #8997: incorrect numHBA in N-heterocycles 115: [09:21:56] done 116/254 Test #115: testDescriptors ........................ Passed 1.06 sec test 122 Start 122: testRDF 122: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testRDF 122: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 122: Test timeout computed to be: 7200 121: =>start test rdf custom 121: [09:21:56] test on : 365 molecules done 122: =>start test rdf 122: [09:21:56] test on : 365 molecules done 117/254 Test #122: testRDF ................................ Passed 0.28 sec test 123 Start 123: testMORSE 123: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testMORSE 123: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 123: Test timeout computed to be: 7200 121: =>start test morse custom 121: [09:21:56] test on : 365 molecules done 121: =>start test AUTOCORR3D custom 121: [09:21:56] test on : 365 molecules done 121: =>start test 2 WHIM custom 121: [09:21:56] test on : 365 molecules done 123: =>start test MORSE 123: =>read file 123: [09:21:56] test on : 365 molecules done 118/254 Test #123: testMORSE .............................. Passed 0.36 sec test 124 Start 124: test3D 124: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/test3D 124: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 124: Test timeout computed to be: 7200 124: [09:21:56] ------------------------------------- 124: [09:21:56] Basic PMI tests. 121: =>start test 1 WHIM custom 121: [09:21:56] test on : 365 molecules done 124: [09:21:56] done 124: [09:21:56] ------------------------------------- 124: [09:21:56] More PMI/NPR tests. 124: [09:21:56] done 124: [09:21:56] ------------------------------------- 124: [09:21:56] Basic NPR tests. 124: [09:21:56] done 124: [09:21:56] ------------------------------------- 124: [09:21:56] PMI edge cases. 124: [09:21:56] done 124: [09:21:56] ------------------------------------- 124: [09:21:56] NPR edge cases. 124: [09:21:56] done 124: [09:21:56] ------------------------------------- 124: [09:21:56] 3D descriptors. 124: [09:21:56] done 124: [09:21:56] ------------------------------------- 124: [09:21:56] 3D descriptor edge cases. 124: [09:21:56] done 124: [09:21:56] ------------------------------------- 124: [09:21:56] Inertial shape factor. 124: [09:21:56] done 119/254 Test #124: test3D ................................. Passed 0.20 sec test 125 Start 125: testWHIM 125: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testWHIM 125: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 125: Test timeout computed to be: 7200 125: =>start test WHIM 125: [09:21:57] test on : 365 molecules done 120/254 Test #125: testWHIM ............................... Passed 0.15 sec test 126 Start 126: testGETAWAY 126: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testGETAWAY 126: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 126: Test timeout computed to be: 7200 121: =>start test GETAWAY custom 121: [09:21:57] test on : 365 molecules done 121/254 Test #121: testRDFcustom .......................... Passed 1.77 sec test 127 Start 127: testAUTOCORR3D 127: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testAUTOCORR3D 127: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 127: Test timeout computed to be: 7200 127: =>start test autocorr3D 127: [09:21:57] test on : 365 molecules done 122/254 Test #127: testAUTOCORR3D ......................... Passed 0.18 sec test 128 Start 128: testCoulombMat 128: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/testCoulombMat 128: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 128: Test timeout computed to be: 7200 128: ===================== Testing CoulombMat ======================= 128: CM test 1 mat Done 123/254 Test #128: testCoulombMat ......................... Passed 0.02 sec test 129 Start 129: descriptorsTestCatch 129: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/descriptorsTestCatch 129: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors 129: Test timeout computed to be: 7200 126: =>start test GETAWAY 126: [09:21:57] test on : 365 molecules done 124/254 Test #126: testGETAWAY ............................ Passed 0.87 sec test 130 Start 130: pyMolDescriptors 130: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Wrap/testMolDescriptors.py" 130: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/Wrap 130: Test timeout computed to be: 7200 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: ..[09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: .[09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: ..[09:21:58] 130: 130: **** 130: Pre-condition Violation 130: Number of atom props not equal to number of atoms 130: Violation occurred on line 89 in file ./Code/GraphMol/Descriptors/BCUT.cpp 130: Failed Expression: atom_props.size() == num_atoms 130: ---------- 130: Stacktrace: 130: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 130: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 130: 2# RDKit::Descriptors::BCUT2D(RDKit::ROMol const&, std::vector > const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitDescriptors.so.1 130: 3# 0x0000000000061682 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolDescriptors.so 130: 4# 0x00000000000893BB in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolDescriptors.so 130: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 130: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 130: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 130: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 130: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 130: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 130: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 130: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 130: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 130: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 130: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 130: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 130: 17# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 130: 18# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 130: 19# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 130: 20# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 130: 21# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 130: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 130: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 130: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 130: 25# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 130: 26# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 130: 27# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 130: 28# _PyObject_MakeTpCall in /usr/bin/python3 130: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 130: 30# 0x00000000001DD0A7 in /usr/bin/python3 130: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 130: 32# 0x00000000002A967B in /usr/bin/python3 130: 33# 0x000000000024191D in /usr/bin/python3 130: 34# _PyObject_MakeTpCall in /usr/bin/python3 130: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 130: 36# 0x00000000001DD0A7 in /usr/bin/python3 130: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 130: 38# 0x00000000002A967B in /usr/bin/python3 130: 39# 0x000000000024191D in /usr/bin/python3 130: 40# _PyObject_MakeTpCall in /usr/bin/python3 130: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 130: 42# 0x00000000001DD0A7 in /usr/bin/python3 130: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 130: 44# 0x00000000002A967B in /usr/bin/python3 130: 45# 0x000000000024191D in /usr/bin/python3 130: 46# _PyObject_MakeTpCall in /usr/bin/python3 130: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 130: 48# 0x00000000001AE9E2 in /usr/bin/python3 130: 49# _PyObject_MakeTpCall in /usr/bin/python3 130: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 130: 51# PyEval_EvalCode in /usr/bin/python3 130: 52# 0x00000000002C1C44 in /usr/bin/python3 130: 53# 0x00000000002BEBDF in /usr/bin/python3 130: 54# 0x00000000002D0454 in /usr/bin/python3 130: 55# 0x00000000002CFEE9 in /usr/bin/python3 130: 56# 0x00000000002CFD1E in /usr/bin/python3 130: 57# Py_RunMain in /usr/bin/python3 130: 58# Py_BytesMain in /usr/bin/python3 130: 59# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 130: 60# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 130: 61# _start in /usr/bin/python3 130: ---------- 130: **** 130: 129: Randomness seeded to: 3901781804 129: =============================================================================== 129: All tests passed (815 assertions in 11 test cases) 129: 125/254 Test #129: descriptorsTestCatch ................... Passed 0.50 sec test 131 Start 131: pyMolDescriptors3D 131: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Descriptors/Wrap/test3D.py" 131: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/Wrap 131: Test timeout computed to be: 7200 130: ....[09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: .[09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: ..[09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: .[09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: ...[09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: [09:21:58] DEPRECATION WARNING: please use MorganGenerator 130: ....[09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 99: 0,0 0 99: 0,1 0 99: 1,0 0 99: 1,1 0 99: 2,0 0 99: 2,1 0 130: ....[09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 130: .[09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: ..[09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: .[09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 130: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 126/254 Test #99: testEnumeration ........................ Passed 4.89 sec test 132 Start 132: testFingerprints 132: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/testFingerprints 132: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints 132: Test timeout computed to be: 7200 130: ... 130: ---------------------------------------------------------------------- 130: Ran 31 tests in 0.407s 130: 130: OK 130: exactmw 78.046950192 130: amw 78.11399999999999 130: lipinskiHBA 0.0 130: lipinskiHBD 0.0 130: NumRotatableBonds 0.0 130: NumHBD 0.0 130: NumHBA 0.0 130: NumHeavyAtoms 6.0 130: NumAtoms 12.0 130: NumHeteroatoms 0.0 130: NumAmideBonds 0.0 130: FractionCSP3 0.0 130: NumRings 1.0 130: NumAromaticRings 1.0 130: NumAliphaticRings 0.0 130: NumSaturatedRings 0.0 130: NumHeterocycles 0.0 130: NumAromaticHeterocycles 0.0 130: NumSaturatedHeterocycles 0.0 130: NumAliphaticHeterocycles 0.0 130: NumSpiroAtoms 0.0 130: NumBridgeheadAtoms 0.0 130: NumAtomStereoCenters 0.0 130: NumUnspecifiedAtomStereoCenters 0.0 130: labuteASA 37.43140311949697 130: tpsa 0.0 130: CrippenClogP 1.6866 130: CrippenMR 26.441999999999993 130: chi0v 3.464101615137755 130: chi1v 2.0000000000000004 130: chi2v 0.6666666666666671 130: chi3v 0.6666666666666671 130: chi4v 0.38490017945975075 130: chi0n 3.464101615137755 130: chi1n 2.0000000000000004 130: chi2n 0.6666666666666671 130: chi3n 0.6666666666666671 130: chi4n 0.38490017945975075 130: hallKierAlpha -0.78 130: kappa1 3.4115708812260532 130: kappa2 1.6057694396735218 130: kappa3 0.5823992601400448 130: Phi 0.9130327103921437 130: CustomNumAtoms 6.0 130: exactmw 78.046950192 130: lipinskiHBA 0.0 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: Atoms: 132: 0 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 5 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: Bonds: 132: 0 0->1 order: 1 conj?: 1 132: 1 1->2 order: a conj?: 1 aromatic?: 1 132: 2 2->3 order: a conj?: 1 aromatic?: 1 132: 3 3->4 order: a conj?: 1 aromatic?: 1 132: 4 4->5 order: a conj?: 1 aromatic?: 1 132: 5 5->6 order: a conj?: 1 aromatic?: 1 132: 6 6->7 order: a conj?: 1 aromatic?: 1 132: 7 7->8 order: a conj?: 1 aromatic?: 1 132: 8 8->9 order: 1 conj?: 1 132: 9 8->10 order: a conj?: 1 aromatic?: 1 132: 10 10->1 order: a conj?: 1 aromatic?: 1 132: 11 7->3 order: a conj?: 1 aromatic?: 1 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: SMI: Oc1cc2[nH]cnc2c(O)n1 132: Atoms: 132: 0 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 5 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: Bonds: 132: 0 0->1 order: 1 conj?: 1 132: 1 1->2 order: a conj?: 1 aromatic?: 1 132: 2 2->3 order: a conj?: 1 aromatic?: 1 132: 3 3->4 order: a conj?: 1 aromatic?: 1 132: 4 4->5 order: a conj?: 1 aromatic?: 1 132: 5 5->6 order: a conj?: 1 aromatic?: 1 132: 6 6->7 order: a conj?: 1 aromatic?: 1 132: 7 7->8 order: a conj?: 1 aromatic?: 1 132: 8 8->9 order: 1 conj?: 1 132: 9 8->10 order: a conj?: 1 aromatic?: 1 132: 10 10->1 order: a conj?: 1 aromatic?: 1 132: 11 7->3 order: a conj?: 1 aromatic?: 1 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: SMI: c1(O)cc2[nH]cnc2c(O)n1 132: Atoms: 132: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 1 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 5 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: Bonds: 132: 0 0->1 order: 1 conj?: 1 132: 1 0->2 order: a conj?: 1 aromatic?: 1 132: 2 2->3 order: a conj?: 1 aromatic?: 1 132: 3 3->4 order: a conj?: 1 aromatic?: 1 132: 4 4->5 order: a conj?: 1 aromatic?: 1 132: 5 5->6 order: a conj?: 1 aromatic?: 1 132: 6 6->7 order: a conj?: 1 aromatic?: 1 132: 7 7->8 order: a conj?: 1 aromatic?: 1 132: 8 8->9 order: 1 conj?: 1 132: 9 8->10 order: a conj?: 1 aromatic?: 1 132: 10 10->0 order: a conj?: 1 aromatic?: 1 132: 11 7->3 order: a conj?: 1 aromatic?: 1 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: SMI: c1c(O)nc(O)c2c1[nH]cn2 132: Atoms: 132: 0 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 2 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 3 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 4 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 5 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 6 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: Bonds: 132: 0 0->1 order: a conj?: 1 aromatic?: 1 132: 1 1->2 order: 1 conj?: 1 132: 2 1->3 order: a conj?: 1 aromatic?: 1 132: 3 3->4 order: a conj?: 1 aromatic?: 1 132: 4 4->5 order: 1 conj?: 1 132: 5 4->6 order: a conj?: 1 aromatic?: 1 132: 6 6->7 order: a conj?: 1 aromatic?: 1 132: 7 7->8 order: a conj?: 1 aromatic?: 1 132: 8 8->9 order: a conj?: 1 aromatic?: 1 132: 9 9->10 order: a conj?: 1 aromatic?: 1 132: 10 7->0 order: a conj?: 1 aromatic?: 1 132: 11 10->6 order: a conj?: 1 aromatic?: 1 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: SMI: c12cc(O)nc(O)c1nc[nH]2 132: Atoms: 132: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 1 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 3 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 4 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: Bonds: 132: 0 0->1 order: a conj?: 1 aromatic?: 1 132: 1 1->2 order: a conj?: 1 aromatic?: 1 132: 2 2->3 order: 1 conj?: 1 132: 3 2->4 order: a conj?: 1 aromatic?: 1 132: 4 4->5 order: a conj?: 1 aromatic?: 1 132: 5 5->6 order: 1 conj?: 1 132: 6 5->7 order: a conj?: 1 aromatic?: 1 132: 7 7->8 order: a conj?: 1 aromatic?: 1 132: 8 8->9 order: a conj?: 1 aromatic?: 1 132: 9 9->10 order: a conj?: 1 aromatic?: 1 132: 10 7->0 order: a conj?: 1 aromatic?: 1 132: 11 10->0 order: a conj?: 1 aromatic?: 1 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: SMI: [nH]1c2cc(O)nc(O)c2nc1 132: Atoms: 132: 0 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 4 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 5 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 6 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 7 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 9 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 10 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: Bonds: 132: 0 0->1 order: a conj?: 1 aromatic?: 1 132: 1 1->2 order: a conj?: 1 aromatic?: 1 132: 2 2->3 order: a conj?: 1 aromatic?: 1 132: 3 3->4 order: 1 conj?: 1 132: 4 3->5 order: a conj?: 1 aromatic?: 1 132: 5 5->6 order: a conj?: 1 aromatic?: 1 132: 6 6->7 order: 1 conj?: 1 132: 7 6->8 order: a conj?: 1 aromatic?: 1 132: 8 8->9 order: a conj?: 1 aromatic?: 1 132: 9 9->10 order: a conj?: 1 aromatic?: 1 132: 10 10->0 order: a conj?: 1 aromatic?: 1 132: 11 8->1 order: a conj?: 1 aromatic?: 1 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: SMI: c1[nH]c2cc(O)nc(O)c2n1 132: Atoms: 132: 0 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 1 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 3 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 4 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 5 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 6 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 7 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 8 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 9 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: Bonds: 132: 0 0->1 order: a conj?: 1 aromatic?: 1 132: 1 1->2 order: a conj?: 1 aromatic?: 1 132: 2 2->3 order: a conj?: 1 aromatic?: 1 132: 3 3->4 order: a conj?: 1 aromatic?: 1 132: 4 4->5 order: 1 conj?: 1 132: 5 4->6 order: a conj?: 1 aromatic?: 1 132: 6 6->7 order: a conj?: 1 aromatic?: 1 132: 7 7->8 order: 1 conj?: 1 132: 8 7->9 order: a conj?: 1 aromatic?: 1 132: 9 9->10 order: a conj?: 1 aromatic?: 1 132: 10 10->0 order: a conj?: 1 aromatic?: 1 132: 11 9->2 order: a conj?: 1 aromatic?: 1 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: SMI: n1c[nH]c2cc(O)nc(O)c21 132: Atoms: 132: 0 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 1 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 2 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 4 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 9 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 10 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: Bonds: 132: 0 0->1 order: a conj?: 1 aromatic?: 1 132: 1 1->2 order: a conj?: 1 aromatic?: 1 132: 2 2->3 order: a conj?: 1 aromatic?: 1 132: 3 3->4 order: a conj?: 1 aromatic?: 1 132: 4 4->5 order: a conj?: 1 aromatic?: 1 132: 5 5->6 order: 1 conj?: 1 132: 6 5->7 order: a conj?: 1 aromatic?: 1 132: 7 7->8 order: a conj?: 1 aromatic?: 1 132: 8 8->9 order: 1 conj?: 1 132: 9 8->10 order: a conj?: 1 aromatic?: 1 132: 10 10->0 order: a conj?: 1 aromatic?: 1 132: 11 10->3 order: a conj?: 1 aromatic?: 1 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: SMI: c12c(cc(O)nc1O)[nH]cn2 132: Atoms: 132: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 2 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 4 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 5 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 6 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 7 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: Bonds: 132: 0 0->1 order: a conj?: 1 aromatic?: 1 132: 1 1->2 order: a conj?: 1 aromatic?: 1 132: 2 2->3 order: a conj?: 1 aromatic?: 1 132: 3 3->4 order: 1 conj?: 1 132: 4 3->5 order: a conj?: 1 aromatic?: 1 132: 5 5->6 order: a conj?: 1 aromatic?: 1 132: 6 6->7 order: 1 conj?: 1 132: 7 1->8 order: a conj?: 1 aromatic?: 1 132: 8 8->9 order: a conj?: 1 aromatic?: 1 132: 9 9->10 order: a conj?: 1 aromatic?: 1 132: 10 6->0 order: a conj?: 1 aromatic?: 1 132: 11 10->0 order: a conj?: 1 aromatic?: 1 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: SMI: c1(O)c2c(cc(O)n1)[nH]cn2 132: Atoms: 132: 0 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 1 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 4 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: Bonds: 132: 0 0->1 order: 1 conj?: 1 132: 1 0->2 order: a conj?: 1 aromatic?: 1 132: 2 2->3 order: a conj?: 1 aromatic?: 1 132: 3 3->4 order: a conj?: 1 aromatic?: 1 132: 4 4->5 order: a conj?: 1 aromatic?: 1 132: 5 5->6 order: 1 conj?: 1 132: 6 5->7 order: a conj?: 1 aromatic?: 1 132: 7 3->8 order: a conj?: 1 aromatic?: 1 132: 8 8->9 order: a conj?: 1 aromatic?: 1 132: 9 9->10 order: a conj?: 1 aromatic?: 1 132: 10 7->0 order: a conj?: 1 aromatic?: 1 132: 11 10->2 order: a conj?: 1 aromatic?: 1 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: SMI: Oc1c2c(cc(O)n1)[nH]cn2 132: Atoms: 132: 0 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 2 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 3 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 4 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 5 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 6 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 8 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 9 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 10 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: Bonds: 132: 0 0->1 order: 1 conj?: 1 132: 1 1->2 order: a conj?: 1 aromatic?: 1 132: 2 2->3 order: a conj?: 1 aromatic?: 1 132: 3 3->4 order: a conj?: 1 aromatic?: 1 132: 4 4->5 order: a conj?: 1 aromatic?: 1 132: 5 5->6 order: 1 conj?: 1 132: 6 5->7 order: a conj?: 1 aromatic?: 1 132: 7 3->8 order: a conj?: 1 aromatic?: 1 132: 8 8->9 order: a conj?: 1 aromatic?: 1 132: 9 9->10 order: a conj?: 1 aromatic?: 1 132: 10 7->1 order: a conj?: 1 aromatic?: 1 132: 11 10->2 order: a conj?: 1 aromatic?: 1 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: SMI: n1c(O)cc2[nH]cnc2c1O 132: Atoms: 132: 0 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 1 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 2 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: 3 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 4 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 5 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 6 6 C chg: 0 deg: 2 exp: 3 imp: 1 hyb: SP2 arom?: 1 132: 7 7 N chg: 0 deg: 2 exp: 3 imp: 0 hyb: SP2 arom?: 1 132: 8 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 9 6 C chg: 0 deg: 3 exp: 4 imp: 0 hyb: SP2 arom?: 1 132: 10 8 O chg: 0 deg: 1 exp: 1 imp: 1 hyb: SP2 132: Bonds: 132: 0 0->1 order: a conj?: 1 aromatic?: 1 132: 1 1->2 order: 1 conj?: 1 132: 2 1->3 order: a conj?: 1 aromatic?: 1 132: 3 3->4 order: a conj?: 1 aromatic?: 1 132: 4 4->5 order: a conj?: 1 aromatic?: 1 132: 5 5->6 order: a conj?: 1 aromatic?: 1 132: 6 6->7 order: a conj?: 1 aromatic?: 1 132: 7 7->8 order: a conj?: 1 aromatic?: 1 132: 8 8->9 order: a conj?: 1 aromatic?: 1 132: 9 9->10 order: 1 conj?: 1 132: 10 9->0 order: a conj?: 1 aromatic?: 1 132: 11 8->4 order: a conj?: 1 aromatic?: 1 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: 132: 132: 132: 132: 132: 132: 132: 132: ------------------- 132: 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Morgan Fingerprints. 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Morgan Fingerprints using fromAtoms argument. 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Morgan Fingerprints as bit vects. 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Morgan Fingerprints with feature invariants. 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test additional Morgan fingerprints options. 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Atom Codes. 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Atom Pairs. 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Atom Pairs part 2. 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Topological Torsions. 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Bulk Topological Torsions. 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 127/254 Test #130: pyMolDescriptors ....................... Passed 0.64 sec 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator test 133 Start 133: testMHFPFingerprint 133: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/testMHFPFingerprint 133: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints 133: Test timeout computed to be: 7200 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [09:21:58] ------------------------------------- 133: [09:21:58] Test MHFP fingerprint encoder initialization 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 131: ........ 131: ---------------------------------------------------------------------- 131: Ran 8 tests in 0.088s 131: 131: OK 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [09:21:58] done 133: [09:21:58] ------------------------------------- 133: [09:21:58] Test MHFP shingling creation 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [09:21:58] done 133: [09:21:58] ------------------------------------- 133: [09:21:58] Test MHFP hashing of string and uint arrays 133: [09:21:58] done 133: [09:21:58] ------------------------------------- 133: [09:21:58] Test SECFP fingerprint functionality 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 133: [09:21:58] done 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 128/254 Test #133: testMHFPFingerprint .................... Passed 0.04 sec 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator test 134 Start 134: testFingerprintGenerators 134: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/testFingerprintGenerators 134: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints 134: Test timeout computed to be: 7200 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Hashed Atom Pairs. 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Hashed torsions. 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Rooted Atom Pairs. 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test ignoring atoms in Atom Pairs. 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Rooted Topological Torsions. 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test ignoring atoms in Topological Torsions. 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test atom info from morgan fingerprints. 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test atom info from morgan fingerprints including Info Redundant Environments. 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] ------------------------------------- 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] ------------------------------------- 132: [09:21:58] ------------------------------------- 132: [09:21:58] ------------------------------------- 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Atom Pairs including info about chirality. 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test Topological Torsions including info about chirality. 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test GitHub Issue 25: fingerprint backwards compatibility. 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test GitHub Issue 151: PatternFingerprint problems 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test atom-pair fp generator 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test atom-pair fp generator with different arguments 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test compatibility between atom pair implementation for FingerprintGenerator and old atom pairs implementation 134: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 129/254 Test #131: pyMolDescriptors3D ..................... Passed 0.28 sec 134: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 134: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator test 135 Start 135: fpTestCatch 135: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/fpTestCatch 135: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints 135: Test timeout computed to be: 7200 134: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 134: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 134: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 134: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test 3D atom pairs. 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test GitHub Issue 195: GenMACCSKeys() raises an exception with an empty molecule 132: [09:21:58] done 132: [09:21:58] ------------------------------------- 132: [09:21:58] Test multithreading with the pattern FP 132: reading molecules 134: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 134: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 134: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test atom-pair additional output 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test Folded Atom Pairs. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test Rooted Atom Pairs. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test ignoring atoms in Atom Pairs. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test Atom Pairs including info about chirality. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test Morgan Fingerprints. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test morgan fp generator 132: pass 1 132: launch :0 132: launch :1 132: launch :2 132: launch :3 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test Morgan Fingerprints using fromAtoms argument. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test Morgan Fingerprints as bit vects. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test Morgan Fingerprints with feature invariants. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test additional Morgan fingerprints options. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test GitHub Issue 695: Include cis/trans stereochemistry when useChirality=true with the morgan fingerprints 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Single atoms setting radius 1 bits in Morgan fingerprints 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test different invariant generator combinations 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test invariant overriding 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test RDKit fp generator 135: Randomness seeded to: 2219132661 135: =============================================================================== 135: All tests passed (245 assertions in 17 test cases) 135: 130/254 Test #135: fpTestCatch ............................ Passed 0.02 sec test 136 Start 136: fpGenTestCatch 136: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/fpGenTestCatch 136: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints 136: Test timeout computed to be: 7200 136: Randomness seeded to: 1244203545 136: =============================================================================== 136: All tests passed (2763 assertions in 8 test cases) 136: 131/254 Test #136: fpGenTestCatch ......................... Passed 0.04 sec test 137 Start 137: pyTestGenerator 137: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/Wrap/testGenerators.py" 137: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/Wrap 137: Test timeout computed to be: 7200 132: pass 2 132: launch :0 132: launch :1 132: launch :2 132: launch :3 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test unfolded version of RDKFP 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test topological torsion fp generator 134: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 134: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 134: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 134: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 134: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 134: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 134: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 134: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 134: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 134: [09:21:58] DEPRECATION WARNING: please use TopologicalTorsionGenerator 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test Topological Torsions. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test Folded torsions. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test Bulk Topological Torsions. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test Rooted Topological Torsions. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test ignoring atoms in Topological Torsions. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test Topological Torsions including info about chirality. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test GitHub Issue 25: fingerprint backwards compatibility. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test GitHub Issue 334: explicit Hs in SMILES modifies atom pair (and topological torsion) FP. 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test GitHub Issue 811: rooted atom fingerprint non identical for the same molecules #811 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test convenience and bulk fp calculation functions 137: ................ 137: ---------------------------------------------------------------------- 137: Ran 16 tests in 0.048s 137: 137: OK 132/254 Test #137: pyTestGenerator ........................ Passed 0.22 sec test 138 Start 138: pyTestMHFP 138: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Fingerprints/Wrap/testMHFP.py" 138: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/Wrap 138: Test timeout computed to be: 7200 134: [09:21:58] done 134: [09:21:58] ------------------------------------- 134: [09:21:58] Test GitHub Issue #6958 134: [09:21:58] DEPRECATION WARNING: please use AtomPairGenerator 133/254 Test #134: testFingerprintGenerators .............. Passed 0.36 sec test 139 Start 139: testPartialCharges 139: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges/testPartialCharges 139: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges 139: Test timeout computed to be: 7200 134/254 Test #139: testPartialCharges ..................... Passed 0.01 sec test 140 Start 140: pyPartialCharges 140: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/PartialCharges/Wrap/testPartialCharges.py" 140: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges/Wrap 140: Test timeout computed to be: 7200 138: ... 138: ---------------------------------------------------------------------- 138: Ran 3 tests in 0.064s 138: 138: OK 135/254 Test #138: pyTestMHFP ............................. Passed 0.16 sec test 141 Start 141: testMolTransforms 141: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms/testMolTransforms 141: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms 141: Test timeout computed to be: 7200 141: *********************************************************** 141: Testing MolTransforms 141: --------------------------------- 141: test1Canonicalization 141: 141: --------------------------------- 141: testGetSetBondLength 141: 141: --------------------------------- 141: testGetSetAngle 141: 141: --------------------------------- 141: testGetSetDihedral 141: 141: --------------------------------- 141: testGetSetDihedralThroughTripleBond 141: 141: --------------------------------- 141: testGithub1262: PMI descriptors incorrect 141: 141: --------------------------------- 141: testGithub1908: CanonicalizeMol() distorting bond lengths 141: 141: --------------------------------- 141: testGithub4302: native computeCanonicalTransform() generates non-canonical coords 141: 141: --------------------------------- 141: testWeightedCentroid 141: 141: *********************************************************** 136/254 Test #141: testMolTransforms ...................... Passed 0.02 sec test 142 Start 142: molTransformsTestCatch 142: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms/molTransformsTestCatch 142: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms 142: Test timeout computed to be: 7200 140: ....... 140: ---------------------------------------------------------------------- 140: Ran 7 tests in 0.037s 140: 140: OK 142: Randomness seeded to: 2523808658 142: =============================================================================== 142: All tests passed (8 assertions in 2 test cases) 142: 137/254 Test #142: molTransformsTestCatch ................. Passed 0.02 sec test 143 Start 143: pyMolTransforms 143: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolTransforms/Wrap/testMolTransforms.py" 143: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms/Wrap 143: Test timeout computed to be: 7200 138/254 Test #140: pyPartialCharges ....................... Passed 0.14 sec test 144 Start 144: forceFieldHelpersCatch 144: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/forceFieldHelpersCatch 144: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers 144: Test timeout computed to be: 7200 144: Randomness seeded to: 3152512851 144: =============================================================================== 144: All tests passed (17 assertions in 2 test cases) 144: 139/254 Test #144: forceFieldHelpersCatch ................. Passed 0.02 sec test 145 Start 145: testMMFFForceFieldHelpers 145: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFForceFieldHelpers 145: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF 145: Test timeout computed to be: 7200 145: [09:21:59] ------------------------------------- 145: [09:21:59] Test MMFF atom types. 145: [09:21:59] done 145: [09:21:59] ------------------------------------- 145: [09:21:59] Testing MMFF builder tools. 145: [09:21:59] done 145: [09:21:59] ------------------------------------- 145: [09:21:59] Testing MMFF builder+minimization. 145: [09:21:59] done 145: [09:21:59] ------------------------------------- 145: [09:21:59] Testing Issue239. 145: [09:21:59] done 145: [09:21:59] ------------------------------------- 145: [09:21:59] Testing calcEnergy with passed coords. 145: [09:21:59] done 145: [09:21:59] ------------------------------------- 145: [09:21:59] Testing calcGrad. 145: [09:21:59] done 145: [09:21:59] ------------------------------------- 145: [09:21:59] Testing Issue242. 145: [09:21:59] done 145: [09:21:59] ------------------------------------- 145: [09:21:59] Testing github 308: crash during MMFF parameterization . 145: [09:21:59] ------------------------------------- 145: [09:21:59] Testing SFIssue1653802. 145: [09:21:59] done 145: [09:21:59] ------------------------------------- 145: [09:21:59] Testing SFIssue2378119. 145: [09:21:59] done 145: [09:21:59] ------------------------------------- 145: [09:21:59] Test MMFF force-field parameter getters. 145: [09:21:59] ------------------------------------- 145: [09:21:59] Test MMFF multithreading 145: generating reference data 143: ........ 143: ---------------------------------------------------------------------- 143: Ran 8 tests in 0.016s 143: 143: OK 140/254 Test #143: pyMolTransforms ........................ Passed 0.17 sec test 146 Start 146: testMMFFForceFieldHelpersMultiThread 146: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFForceFieldHelpersMultiThread 146: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF 146: Test timeout computed to be: 7200 146: [09:21:59] ------------------------------------- 146: [09:21:59] Test MMFF multithreading 146: processing 146: launch :0 146: launch :1 146: launch :2 146: launch :3 146: launch :4 146: launch :5 146: launch :6 146: launch :7 146: launch :8 146: launch :9 146: launch :10 146: launch :11 146: launch :12 146: launch :13 146: launch :14 146: launch :15 146: launch :16 146: launch :17 146: launch :18 146: launch :19 146: launch :20 146: launch :21 146: launch :22 146: launch :23 146: done 146: [09:21:59] done 145: processing 145: launch :0 145: launch :1 145: [09:21:59] Rep: 0 Mol:0 145: launch :2 145: [09:21:59] Rep: 0 Mol:1 145: launch :3 145: [09:21:59] Rep: 0 Mol:2 145: [09:21:59] Rep: 0 Mol:3 141/254 Test #146: testMMFFForceFieldHelpersMultiThread ... Passed 0.13 sec test 147 Start 147: testUFFForceFieldHelpers 147: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/testUFFForceFieldHelpers 147: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF 147: Test timeout computed to be: 7200 145: [09:21:59] Rep: 0 Mol:5 145: [09:21:59] Rep: 0 Mol:9 145: [09:21:59] Rep: 0 Mol:4 145: [09:21:59] Rep: 0 Mol:13 145: [09:21:59] Rep: 0 Mol:17 145: [09:21:59] Rep: 0 Mol:6 145: [09:21:59] Rep: 0 Mol:8 145: [09:21:59] Rep: 0 Mol:10 147: [09:21:59] ------------------------------------- 147: [09:21:59] Test UFF atom labels. 145: [09:21:59] Rep: 0 Mol:12 145: [09:21:59] Rep: 0 Mol:16 147: [09:21:59] done 147: [09:21:59] ------------------------------------- 147: [09:21:59] Test UFF atom typer. 147: [09:21:59] done 147: [09:21:59] ------------------------------------- 147: [09:21:59] Testing UFF builder tools. 147: [09:21:59] done 147: [09:21:59] ------------------------------------- 147: [09:21:59] Testing UFF builder+minimization. 145: [09:21:59] Rep: 0 Mol:21 145: [09:21:59] Rep: 0 Mol:20 145: [09:21:59] Rep: 0 Mol:25 145: [09:21:59] Rep: 0 Mol:24 145: [09:21:59] Rep: 0 Mol:29 145: [09:21:59] Rep: 0 Mol:7 145: [09:21:59] Rep: 0 Mol:28 145: [09:21:59] Rep: 0 Mol:11 145: [09:21:59] Rep: 0 Mol:15 145: [09:21:59] Rep: 0 Mol:19 145: [09:21:59] Rep: 0 Mol:14 145: [09:21:59] Rep: 0 Mol:23 145: [09:21:59] Rep: 0 Mol:27 145: [09:21:59] Rep: 0 Mol:18 145: [09:21:59] Rep: 0 Mol:31 145: [09:21:59] Rep: 0 Mol:22 145: [09:21:59] Rep: 0 Mol:26 145: [09:21:59] Rep: 0 Mol:30 147: [09:21:59] done 147: [09:21:59] ------------------------------------- 147: [09:21:59] Testing UFF special cases. 147: [09:21:59] UFFTYPER: Unrecognized charge state for atom: 0 147: [09:21:59] done 147: [09:21:59] ------------------------------------- 147: [09:21:59] Testing Issue239. 145: [09:21:59] Rep: 20 Mol:0 145: [09:21:59] Rep: 20 Mol:4 145: [09:21:59] Rep: 20 Mol:8 145: [09:21:59] Rep: 20 Mol:12 145: [09:21:59] Rep: 20 Mol:16 145: [09:21:59] Rep: 20 Mol:20 145: [09:21:59] Rep: 20 Mol:24 145: [09:21:59] Rep: 20 Mol:28 145: [09:21:59] Rep: 20 Mol:1 145: [09:21:59] Rep: 20 Mol:5 145: [09:21:59] Rep: 20 Mol:9 145: [09:21:59] Rep: 20 Mol:13 145: [09:21:59] Rep: 20 Mol:17 145: [09:21:59] Rep: 20 Mol:21 145: [09:21:59] Rep: 20 Mol:25 145: [09:21:59] Rep: 20 Mol:29 147: [09:21:59] done 147: [09:21:59] ------------------------------------- 147: [09:21:59] Testing calcEnergy with passed coords. 147: [09:21:59] done 147: [09:21:59] ------------------------------------- 147: [09:21:59] Testing calcGrad. 147: [09:21:59] done 147: [09:21:59] ------------------------------------- 147: [09:21:59] Testing SFIssue1653802. 147: [09:21:59] done 147: [09:21:59] ------------------------------------- 147: [09:21:59] Testing SFIssue2378119. 145: [09:21:59] Rep: 20 Mol:3 147: [09:21:59] done 147: [09:21:59] ------------------------------------- 147: [09:21:59] Test UFF force-field parameter getters. 147: [09:21:59] ------------------------------------- 147: [09:21:59] Testing handling missing parameters. 147: [09:21:59] UFFTYPER: Unrecognized hybridization for atom: 0 147: [09:21:59] UFFTYPER: Unrecognized atom type: Cu+1 (0) 145: [09:21:59] Rep: 20 Mol:7 145: [09:21:59] Rep: 20 Mol:11 145: [09:21:59] Rep: 20 Mol:15 145: [09:21:59] Rep: 20 Mol:19 145: [09:21:59] Rep: 20 Mol:23 145: [09:21:59] Rep: 20 Mol:27 145: [09:21:59] Rep: 20 Mol:31 147: [09:21:59] UFFTYPER: Unrecognized hybridization for atom: 0 147: [09:21:59] UFFTYPER: Unrecognized atom type: Cu+1 (0) 147: [09:21:59] done 147: [09:21:59] ------------------------------------- 147: [09:21:59] Testing SFIssue3009337. 147: [09:21:59] done 147: [09:21:59] ------------------------------------- 147: [09:21:59] Test UFF multithreading 147: generating reference data 145: [09:21:59] Rep: 40 Mol:0 145: [09:21:59] Rep: 40 Mol:4 145: [09:21:59] Rep: 40 Mol:8 145: [09:21:59] Rep: 40 Mol:12 145: [09:21:59] Rep: 40 Mol:16 145: [09:21:59] Rep: 40 Mol:20 145: [09:21:59] Rep: 40 Mol:24 145: [09:21:59] Rep: 40 Mol:1 145: [09:21:59] Rep: 40 Mol:5 145: [09:21:59] [09:21:59] Rep: 40 Mol:9 145: Rep: 40 Mol:28 145: [09:21:59] Rep: 20 Mol:2 145: [09:21:59] Rep: 40 Mol:13 145: [09:21:59] Rep: 20 Mol:6 145: [09:21:59] Rep: 40 Mol:17 145: [09:21:59] Rep: 20 Mol:10 145: [09:21:59] Rep: 40 Mol:21 145: [09:21:59] Rep: 20 Mol:14 145: [09:21:59] Rep: 40 Mol:25 145: [09:21:59] Rep: 20 Mol:18 145: [09:21:59] Rep: 40 Mol:29 145: [09:21:59] Rep: 20 Mol:22 145: [09:21:59] Rep: 20 Mol:26 145: [09:21:59] Rep: 20 Mol:30 145: [09:21:59] Rep: 40 Mol:3 145: [09:21:59] Rep: 40 Mol:7 145: [09:21:59] Rep: 40 Mol:11 145: [09:21:59] Rep: 40 Mol:15 145: [09:21:59] Rep: 40 Mol:19 145: [09:21:59] Rep: 40 Mol:23 145: [09:21:59] Rep: 40 Mol:27 145: [09:21:59] Rep: 40 Mol:31 145: [09:21:59] Rep: 60 Mol:0 145: [09:21:59] Rep: 60 Mol:4 145: [09:21:59] Rep: 60 Mol:1 145: [09:21:59] Rep: 60 Mol:5 145: [09:21:59] Rep: 60 Mol:9 145: [09:21:59] Rep: 60 Mol:8 145: [09:21:59] Rep: 60 Mol:13 145: [09:21:59] Rep: 60 Mol:12 145: [09:21:59] Rep: 60 Mol:16 145: [09:21:59] Rep: 60 Mol:3 145: [09:21:59] Rep: 60 Mol:17 145: [09:21:59] Rep: 60 Mol:20 145: [09:21:59] Rep: 60 Mol:7 145: [09:21:59] Rep: 60 Mol:21 145: [09:21:59] Rep: 60 Mol:24 145: [09:21:59] Rep: 60 Mol:11 145: [09:21:59] Rep: 60 Mol:25 145: [09:21:59] Rep: 60 Mol:15 145: [09:21:59] Rep: 60 Mol:28 145: [09:21:59] Rep: 60 Mol:19 145: [09:21:59] Rep: 60 Mol:29 145: [09:21:59] Rep: 60 Mol:23 145: [09:21:59] Rep: 60 Mol:27 145: [09:21:59] Rep: 60 Mol:31 145: [09:21:59] Rep: 40 Mol:2 145: [09:21:59] Rep: 40 Mol:6 145: [09:21:59] Rep: 40 Mol:10 145: [09:21:59] Rep: 40 Mol:14 145: [09:21:59] Rep: 40 Mol:18 145: [09:21:59] Rep: 40 Mol:22 145: [09:21:59] Rep: 40 Mol:26 145: [09:21:59] Rep: 40 Mol:30 145: [09:21:59] Rep: 80 Mol:3 145: [09:21:59] Rep: 80 Mol:7 145: [09:21:59] Rep: 80 Mol:11 145: [09:21:59] Rep: 80 Mol:15 145: [09:21:59] Rep: 80 Mol:19 145: [09:21:59] Rep: 80 Mol:23 145: [09:21:59] Rep: 80 Mol:27 145: [09:21:59] Rep: 80 Mol:31 145: [09:21:59] Rep: 80 Mol:1 145: [09:21:59] Rep: 80 Mol:5 145: [09:21:59] Rep: 80 Mol:9 145: [09:21:59] Rep: 80 Mol:0 145: [09:21:59] Rep: 80 Mol:13 145: [09:21:59] Rep: 80 Mol:4 145: [09:21:59] Rep: 80 Mol:17 145: [09:21:59] Rep: 80 Mol:8 145: [09:21:59] Rep: 80 Mol:21 145: [09:21:59] Rep: 80 Mol:12 145: [09:21:59] Rep: 80 Mol:16 145: [09:21:59] Rep: 80 Mol:25 145: [09:21:59] Rep: 80 Mol:29 145: [09:21:59] Rep: 80 Mol:20 145: [09:21:59] Rep: 80 Mol:24 145: [09:21:59] Rep: 80 Mol:28 145: [09:21:59] Rep: 60 Mol:2 145: [09:21:59] Rep: 60 Mol:6 145: [09:21:59] Rep: 60 Mol:10 145: [09:21:59] Rep: 60 Mol:14 145: [09:21:59] Rep: 60 Mol:18 145: [09:21:59] Rep: 60 Mol:22 145: [09:21:59] Rep: 60 Mol:26 145: [09:21:59] Rep: 60 Mol:30 147: processing 147: launch :0 147: launch :1 147: launch :2 147: launch :3 147: [09:21:59] Rep: 0 Mol:0 147: [09:21:59] Rep: 0 Mol:2 147: [09:21:59] Rep: 0 Mol:4 147: [09:21:59] Rep: 0 Mol:3 147: [09:21:59] Rep: 0 Mol:1 147: [09:21:59] Rep: 0 Mol:5 147: [09:21:59] Rep: 0 Mol:9 147: [09:21:59] Rep: 0 Mol:6 147: [09:21:59] Rep: 0 Mol:13 147: [09:21:59] Rep: 0 Mol:10 147: [09:21:59] Rep: 0 Mol:7 147: [09:21:59] Rep: 0 Mol:8 147: [09:21:59] Rep: 0 Mol:17 147: [09:21:59] Rep: 0 Mol:11 147: [09:21:59] Rep: 0 Mol:15 147: [09:21:59] Rep: 0 Mol:12 147: [09:21:59] Rep: 0 Mol:19 147: [09:21:59] Rep: 0 Mol:16 147: [09:21:59] Rep: 0 Mol:23 147: [09:21:59] Rep: 0 Mol:27 147: [09:21:59] Rep: 0 Mol:20 147: [09:21:59] Rep: 0 Mol:31 147: [09:21:59] Rep: 0 Mol:21 147: [09:21:59] Rep: 0 Mol:14 147: [09:21:59] Rep: 0 Mol:24 147: [09:21:59] Rep: 0 Mol:25 147: [09:21:59] Rep: 0 Mol:28 147: [09:21:59] Rep: 0 Mol:18 147: [09:21:59] Rep: 0 Mol:29 147: [09:21:59] Rep: 0 Mol:22 147: [09:21:59] Rep: 0 Mol:26 147: [09:21:59] Rep: 0 Mol:30 145: [09:21:59] Rep: 80 Mol:2 145: [09:21:59] Rep: 80 Mol:6 145: [09:21:59] Rep: 80 Mol:10 145: [09:21:59] Rep: 80 Mol:14 145: [09:21:59] Rep: 80 Mol:18 145: [09:21:59] Rep: 80 Mol:22 145: [09:21:59] Rep: 80 Mol:26 145: [09:21:59] Rep: 80 Mol:30 145: [09:21:59] done 145: [09:21:59] ------------------------------------- 145: [09:21:59] Test MMFF multithreading2 147: [09:21:59] Rep: 100 Mol:3 147: [09:21:59] Rep: 100 Mol:7 147: [09:21:59] Rep: 100 Mol:11 147: [09:21:59] Rep: 100 Mol:15 147: [09:21:59] Rep: 100 Mol:19 147: [09:21:59] Rep: 100 Mol:23 147: [09:21:59] Rep: 100 Mol:27 147: [09:21:59] Rep: 100 Mol:31 147: [09:21:59] Rep: 100 Mol:0 147: [09:21:59] Rep: 100 Mol:4 147: [09:21:59] Rep: 100 Mol:8 147: [09:21:59] Rep: 100 Mol:12 147: [09:21:59] Rep: 100 Mol:16 147: [09:21:59] Rep: 100 Mol:20 147: [09:21:59] Rep: 100 Mol:24 147: [09:21:59] Rep: 100 Mol:28 147: [09:21:59] Rep: 100 Mol:1 147: [09:21:59] Rep: 100 Mol:5 147: [09:21:59] Rep: 100 Mol:9 147: [09:21:59] Rep: 100 Mol:13 147: [09:21:59] Rep: 100 Mol:17 147: [09:21:59] Rep: 100 Mol:21 147: [09:21:59] Rep: 100 Mol:25 147: [09:21:59] Rep: 100 Mol:29 147: [09:21:59] Rep: 100 Mol:2 147: [09:22:00] Rep: 100 Mol:6 147: [09:22:00] Rep: 100 Mol:10 147: [09:22:00] Rep: 100 Mol:14 147: [09:22:00] Rep: 100 Mol:18 147: [09:22:00] Rep: 100 Mol:22 147: [09:22:00] Rep: 100 Mol:26 147: [09:22:00] Rep: 100 Mol:30 145: [09:22:00] done 145: [09:22:00] ------------------------------------- 145: [09:22:00] Test MMFF multithreading3 132: [09:22:00] done 132: [09:22:00] ------------------------------------- 132: [09:22:00] Test GitHub Issue 258: Bad pattern fingerprint for query molecule 132: [09:22:00] done 132: [09:22:00] ------------------------------------- 132: [09:22:00] Test GitHub Issue 334: explicit Hs in SMILES modifies atom pair (and topological torsion) FP. 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] done 132: [09:22:00] ------------------------------------- 132: [09:22:00] Test GitHub Issue 695: Include cis/trans stereochemistry when useChirality=true with the morgan fingerprints 132: [09:22:00] done 132: [09:22:00] ------------------------------------- 132: [09:22:00] Test GitHub Issue 811: rooted atom fingerprint non identical for the same molecules #811 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] done 132: [09:22:00] ------------------------------------- 132: [09:22:00] Test unfolded version of RDKFP 132: [09:22:00] ------------------------------------- 132: [09:22:00] Test bitinfo of RDKFP 132: 562: [ 2 ], 132: 709: [ 0 1 ], 132: 1118: [ 0 1 2 ], 132: 1183: [ 1 2 ], 132: 1233: [ 0 1 2 ], 132: 1308: [ 0 ], [ 1 ], 132: 1339: [ 2 ], 132: 1728: [ 1 2 ], 132: 1772: [ 0 ], [ 1 ], 132: 1813: [ 0 1 ], 132: ------------ 132: [09:22:00] ------------------------------------- 132: [09:22:00] Single atoms setting radius 1 bits in Morgan fingerprints 132: [09:22:00] done 132: [09:22:00] ------------------------------------- 132: [09:22:00] Github #879: Pattern fingerprint should set bits for single-atom fragments. 132: [09:22:00] done 132: [09:22:00] ------------------------------------- 132: [09:22:00] Github #1496: Pattern fingerprint setting bad bits for degree zero atoms 132: [09:22:00] done 132: [09:22:00] ------------------------------------- 132: [09:22:00] Github #1793: Fingerprint segfaults with branchedPaths=False and useHs=False 132: [09:22:00] done 132: [09:22:00] ------------------------------------- 132: [09:22:00] Github #1993: fingerprinters that use R/S labels should force a call to assignStereochemistry() if it hasn't already been called 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use AtomPairGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] DEPRECATION WARNING: please use TopologicalTorsionGenerator 132: [09:22:00] done 132: [09:22:00] ------------------------------------- 132: [09:22:00] Github #2115: BitInfo not complete for RDKFingerprint 132: [09:22:00] done 132: [09:22:00] ------------------------------------- 132: [09:22:00] Github #3723: Fingerprint crash for mols with Zero order bonds 132: [09:22:00] done 142/254 Test #132: testFingerprints ....................... Passed 1.53 sec test 148 Start 148: testCrystalForceField 148: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/testCrystalForceField 148: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF 148: Test timeout computed to be: 7200 148: ------------------------------------- 148: Test CrystalFF torsional term. 143/254 Test #148: testCrystalForceField .................. Passed 0.07 sec test 149 Start 149: pyForceFieldHelpers 149: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/ForceFieldHelpers/Wrap/testHelpers.py" 149: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap 149: Test timeout computed to be: 7200 147: [09:22:00] done 147: [09:22:00] ------------------------------------- 147: [09:22:00] Test UFF multithreading2 145: [09:22:00] done 145: [09:22:00] ------------------------------------- 145: [09:22:00] Testing github 162: Incorrect SMILES after MMFF parameterization . 145: [09:22:00] done 145: [09:22:00] ------------------------------------- 145: [09:22:00] Testing github 224: crash during MMFF parameterization . 145: [09:22:00] done 145: [09:22:00] ------------------------------------- 145: [09:22:00] Testing github6728: crash due to missing stretch-bend params. 144/254 Test #145: testMMFFForceFieldHelpers .............. Passed 1.07 sec test 150 Start 150: testDistGeomHelpers 150: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers/testDistGeomHelpers 150: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers 150: Test timeout computed to be: 7200 150: [09:22:00] ******************************************************** 150: [09:22:00] Testing DistGeomHelpers 150: [09:22:00] --------------------------------- 150: [09:22:00] test2 150: 150: go 150: ------------------------------------- 150: 149: [09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: [09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: [09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: [09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: [09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: ..[09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: .[09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: .[09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: .[09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: .[09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: .[09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: .[09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: .[09:22:00] UFFTYPER: Unrecognized hybridization for atom: 0 149: [09:22:00] UFFTYPER: Unrecognized atom type: Cu+1 (0) 149: .[09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: [09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: [09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: [09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: [09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: .[09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: .[09:22:00] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: .[09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: ...[09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 149: .... 149: ---------------------------------------------------------------------- 149: Ran 20 tests in 0.111s 149: 149: OK 145/254 Test #149: pyForceFieldHelpers .................... Passed 0.30 sec test 151 Start 151: distGeomHelpersCatch 151: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers/distGeomHelpersCatch 151: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers 151: Test timeout computed to be: 7200 147: [09:22:00] done 147: [09:22:00] ------------------------------------- 147: [09:22:00] Test UFF multithreading3 151: Randomness seeded to: 1029927220 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [OX2:1][CX4:2]!@;-[CX4:3][N:4]: 32 31 30 33, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 151: [09:22:00] [OX2:1][CX4:2]!@;-[CX4:3][N:4]: 48 46 45 49, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 36 37 38 39, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 37 38 39 40, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 38 39 40 41, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 97 98 99 100, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4H2:2]!@;-[CX4H2:3][!#1:4]: 98 99 100 101, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 0 1 2 3, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 1 2 4 5, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 20 22 23 24, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 22 23 25 26, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 34 36 37 38, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 66 67 68 69, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 84 85 86 87, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 151: [09:22:00] [!#1:1][CX4:2]!@;-[CX4:3][!#1:4]: 96 97 98 99, [(1 0), (1 0), (1 7), (1 0), (1 0), (1 0)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [*:1][X3,X2:2]=[X3,X2:3][*:4]: 101 102 104 220, [(1 0), (-1 100), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [$([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)] 151: [09:22:00] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 6 5 4 117, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [$(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)] 151: [09:22:00] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 34 33 30 144, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [$(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)] 151: [09:22:00] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 62 61 60 181, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [$(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)] 151: [09:22:00] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 94 96 97 210, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [$(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)] 151: [09:22:00] [O:1]=[CX3;r{9-}:2]@;-[NX3H1;r:3][!#1:4]: 91 90 92 93, [(-1 100), (1 0), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] 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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [!#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)] 151: [09:22:00] [!#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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: ----------- 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [$([CX3]=O):1][NX3H1;r{9-}:2]@;-[CX4H2;r{9-}:3][C:4]: 4 3 2 1, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 151: [09:22:00] [$([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)] 151: [09:22:00] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 1 10 9 26, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [$(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)] 151: [09:22:00] [O:1]=[CX3;r{9-}:2]@;-[NX3H1;r:3][!#1:4]: 5 4 3 2, [(-1 100), (1 0), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [O:1]=[CX3;r{9-}:2]@;-[NX3H1;r:3][!#1:4]: 17 16 15 14, [(-1 100), (1 0), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] 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)] 151: [09:22:00] 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)] 151: [09:22:00] [!#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)] 151: [09:22:00] [!#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)] 151: [09:22:00] [!#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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: ----------- 151: [09:22:00] [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)] 151: [09:22:00] [$([CX3]=O):1][NX3H1;r{9-}:2]@;-[CX4H2;r{9-}:3][C:4]: 10 12 13 14, [(1 0), (1 0), (1 4), (1 0), (1 0), (1 0)] 151: [09:22:00] [O:1]=[CX3;r{9-}:2]@;-[NX3H1;r:3][!#1:4]: 11 10 12 13, [(-1 100), (1 0), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] N[C;r{9-}:2](=[O:1])@;-[CH2;r{9-}:3][N:4]: 15 14 13 12, [(1 0), (-1 10), (1 0), (1 0), (1 0), (1 0)] 151: ----------- 151: ----------- 151: [09:22:00] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 2 1 15 14, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 2 3 5 6, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 10 8 7 6, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 10 11 13 14, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 19 17 16 14, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [C:1][C;r{9-}:2](=O)@;-[NX3H1;r:3][CX4H1:4]: 19 20 22 6, [(1 0), (-1 8), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [$(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)] 151: [09:22:00] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 3 5 6 26, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [$(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)] 151: [09:22:00] [$(C=O):1][NX3H1;r{9-}:2]@;-[CX4H1;r{9-}:3][H:4]: 11 13 14 31, [(-1 5), (1 0), (1 0), (1 0), (1 0), (1 0)] 151: [09:22:00] [$(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)] 151: [09:22:00] [$(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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] [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)] 151: [09:22:00] UFFTYPER: Unrecognized atom type: Pt5+2 (1) 151: [09:22:00] UFFTYPER: Unrecognized charge state for atom: 1 151: [09:22:00] UFFTYPER: Unrecognized charge state for atom: 1 151: [09:22:00] UFFTYPER: Unrecognized charge state for atom: 1 151: [09:22:00] UFFTYPER: Unrecognized charge state for atom: 5 151: [09:22:00] UFFTYPER: Unrecognized charge state for atom: 5 151: [09:22:00] UFFTYPER: Unrecognized charge state for atom: 5 151: [09:22:00] UFFTYPER: Unrecognized charge state for atom: 6 151: [09:22:00] UFFTYPER: Unrecognized charge state for atom: 6 151: [09:22:00] UFFTYPER: Unrecognized charge state for atom: 6 147: [09:22:00] done 147: [09:22:00] ------------------------------------- 147: [09:22:00] Testing GitHubIssue62. 147: [09:22:00] beta-lactam 39.6387 147: [09:22:00] cyclopropanone 174.698 147: [09:22:00] aziridine 337.986 147: [09:22:00] aziridinone 115.248 147: [09:22:00] isobutene 2.48217 147: [09:22:00] acetone 1.91788 147: [09:22:00] cyclopentanone 10.1648 147: [09:22:00] cyclopropene 99.4921 147: [09:22:00] cyclobutene 41.0156 147: [09:22:00] cyclopropane 267.236 147: [09:22:00] gamma-lactam 15.7471 147: [09:22:00] trans-2,3-diphenylcyclopropan-1-one 203.398 147: [09:22:00] cis-2,3-diphenylcyclopropan-1-one 206.852 147: [09:22:00] 2,3-diphenylcyclopropa-2-en-1-one 20.0443 147: [09:22:00] cyclopropylidencyclobutane 218.879 147: [09:22:00] diphenylmethylidencyclobutane 79.6139 147: [09:22:00] done 147: [09:22:00] ------------------------------------- 147: [09:22:00] Test Github Issue 613: UFF Atom type not properly assigned to lanthanides. 147: [09:22:00] done 147: [09:22:00] ------------------------------------- 147: [09:22:00] Test square planar complexes 147: [09:22:00] done 147: [09:22:00] ------------------------------------- 147: [09:22:00] Test octahedral complexes 147: [09:22:00] done 146/254 Test #147: testUFFForceFieldHelpers ............... Passed 1.34 sec test 152 Start 152: pyDistGeomHelpers 152: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/DistGeomHelpers/Wrap/testDistGeom.py" 152: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap 152: Test timeout computed to be: 7200 152: .[09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: ..[09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: ..[09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: .[09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:00] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 150: [09:22:00] --------------------------------- 150: [09:22:00] test3 150: 150: [09:22:00] --------------------------------- 150: [09:22:00] test4 150: 150: [09:22:00] --------------------------------- 150: [09:22:00] test5 150: 150: [09:22:00] --------------------------------- 150: [09:22:00] test6 150: 150: [09:22:00] --------------------------------- 150: [09:22:00] test15Dists 150: 150: [09:22:00] --------------------------------- 150: [09:22:00] test Issue 215 150: 150: [09:22:00] --------------------------------- 150: [09:22:00] testMultipleConfs 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] testMultipleConfsExpTors 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] testIssue227 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] testIssue236 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] testOrdering 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] testIssue244 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] testIssue251 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] testIssue276 150: [09:22:01] --------------------------------- 150: [09:22:01] testIssue284 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] testIssue285 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] testIssue355 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] testRandomCoords 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] test sf.net issue 1989539 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] test sf.net issue 2091864 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] test constrained embedding 150: 150: [09:22:01] ssd: 0.0725849 150: [09:22:01] ssd: 0.0756121 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 151: [09:22:01] UFFTYPER: Warning: hybridization set to SP3 for atom 6 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 151: [09:22:01] UFFTYPER: Warning: hybridization set to SP3 for atom 6 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 150: [09:22:01] --------------------------------- 150: [09:22:01] test sf.net issue 2091974 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] test sf.net issue 2835784 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] test sf.net issue 3019283 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] test sf.net issue 3238580 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] test sf.net issue 3483968 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] test github issue 55 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] test1 150: 150: [09:22:01] --------------------------------- 150: [09:22:01] test multi-threading 150: 150: building molecules 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 151: [09:22:01] UFFTYPER: Warning: hybridization set to SP3 for atom 6 150: generating reference data 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 151: [09:22:01] UFFTYPER: Warning: hybridization set to SP3 for atom 11 151: [09:22:01] UFFTYPER: Warning: hybridization set to SP3 for atom 11 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 151: [09:22:01] UFFTYPER: Warning: hybridization set to SP3 for atom 11 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: .[09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:01] Molecule does not have explicit Hs. Consider calling AddHs() 150: validating reference data 152: [09:22:02] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:02] Molecule does not have explicit Hs. Consider calling AddHs() 108: Randomness seeded to: 573710299 108: =============================================================================== 108: All tests passed (340 assertions in 10 test cases) 108: 147/254 Test #108: testSubgraphs1 ......................... Passed 7.77 sec test 153 Start 153: testMolAlign 153: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/testMolAlign 153: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign 153: Test timeout computed to be: 7200 152: [09:22:02] Molecule does not have explicit Hs. Consider calling AddHs() 153: *********************************************************** 153: Testing MolAlign 153: --------------------------------- 153: test1MolAlign 153: 153: --------------------------------- 153: test1GetBestRMS 153: 153: --------------------------------- 153: test1MolWithQueryAlign 153: 153: --------------------------------- 153: test2AtomMap 153: 153: --------------------------------- 153: test3Weights 153: 153: --------------------------------- 153: testIssue241 153: 153: *********************************************************** 148/254 Test #153: testMolAlign ........................... Passed 0.06 sec test 154 Start 154: testO3AAlign 154: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/testO3AAlign 154: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign 154: Test timeout computed to be: 7200 152: [09:22:02] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:02] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:02] Molecule does not have explicit Hs. Consider calling AddHs() 150: processing 150: launch :0 150: launch :1 150: launch :2 150: launch :3 152: .[09:22:02] Molecule does not have explicit Hs. Consider calling AddHs() 154: *********************************************************** 154: Testing O3AAlign 154: --------------------------------- 154: testMMFFO3A 154: 154: --------------------------------- 154: testMMFFO3A with pre-computed dmat and MolHistogram 154: 154: --------------------------------- 154: testMMFFO3A with constraints 154: 154: --------------------------------- 154: testMMFFO3A with variable weight constraints followed by local-only optimization 154: 154: --------------------------------- 154: testCrippenO3A 154: 154: --------------------------------- 154: testCrippenO3A with pre-computed dmat and MolHistogram 154: 154: --------------------------------- 154: testCrippenO3A with constraints 154: 154: --------------------------------- 154: testCrippenO3A with variable weight constraints followed by local-only optimization 154: 154: --------------------------------- 154: testMMFFO3A multithreading 154: 154: generating reference data 154: processing 154: launch :0 154: launch :1 154: launch :2 154: launch :3 33: [09:22:05] Finished 33: [09:22:05] ------------------------------------- 33: [09:22:05] Test github1843: RWMol.clear() should not destroy ring pointer. 33: [09:22:05] Finished 33: [09:22:05] ------------------------------------- 33: [09:22:05] Test Github 6370: non-physical radical counts being preserved 33: [09:22:05] Finished 149/254 Test #33: graphmolTest1 .......................... Passed 21.99 sec test 155 Start 155: molAlignCatchTest 155: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/molAlignCatchTest 155: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign 155: Test timeout computed to be: 7200 155: Randomness seeded to: 1217724549 155: 23452080 155: 48340120 41: [09:22:05] Finished in 19938 ms 41: [09:22:05] Finished 41: [09:22:05] testing smiles round-tripping. 41: [09:22:05] Finished 41: [09:22:05] testing github #1567: Non-canonical result from MolFragmentToSmiles() 41: [09:22:05] Finished 150/254 Test #41: hanoiTest .............................. Passed 21.91 sec test 156 Start 156: pyMolAlign 156: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolAlign/Wrap/testMolAlign.py" 156: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/Wrap 156: Test timeout computed to be: 7200 155: 643574961 155: 165034516 155: =============================================================================== 155: All tests passed (91 assertions in 4 test cases) 155: 151/254 Test #155: molAlignCatchTest ...................... Passed 0.93 sec test 157 Start 157: testFeatures 157: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/testFeatures 157: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures 157: Test timeout computed to be: 7200 157: [09:22:05] ------------------------------------- 157: [09:22:05] AtomType parser testing. 157: [09:22:05] SMARTS Parse Error: syntax error while parsing: [$([!$([NH0])_100;N,O,$([S])_101,$([N,O)_102])_103] 157: [09:22:05] SMARTS Parse Error: check for mistakes around position 40: 157: [09:22:05] ,O,$([S])_101,$([N,O)_102])_103] 157: [09:22:05] ~~~~~~~~~~~~~~~~~~~~^ 157: [09:22:05] SMARTS Parse Error: Failed parsing SMARTS '[$([!$([NH0])_100;N,O,$([S])_101,$([N,O)_102])_103]' for input: '[$([!$([NH0]);N,O,$([S]),$([N,O)])]' 157: [09:22:05] done 157: [09:22:05] ------------------------------------- 157: [09:22:05] FeatureDefinition parser testing. 157: [09:22:05] done 157: [09:22:05] ------------------------------------- 157: [09:22:05] Test pulling feat defs from a string. 157: [09:22:05] done 157: [09:22:05] ------------------------------------- 157: [09:22:05] FeatureDef functionality testing. 157: [09:22:05] done 157: [09:22:05] ------------------------------------- 157: [09:22:05] FeatureFactory testing. 157: [09:22:05] 1 157: [09:22:05] 2 157: [09:22:05] 3 157: [09:22:05] 4 157: [09:22:05] 5 157: [09:22:05] 6 157: [09:22:05] done 157: [09:22:05] ------------------------------------- 157: [09:22:05] Feature Location testing. 157: [09:22:05] done 157: [09:22:05] ------------------------------------- 157: [09:22:05] Test building a FeatureFactory from a file 157: [09:22:05] done 157: [09:22:05] ------------------------------------- 157: [09:22:05] Testing Issue 224. 157: [09:22:05] done 157: [09:22:05] ------------------------------------- 157: [09:22:05] Testing Issue 225. 157: [09:22:05] done 157: [09:22:05] ------------------------------------- 157: [09:22:05] Test Issue346 157: [09:22:05] done 157: [09:22:05] ------------------------------------- 157: [09:22:05] Test Issue347 157: [09:22:05] done 157: [09:22:05] ------------------------------------- 157: [09:22:05] Testing Issue 348. 157: [09:22:05] SMARTS Parse Error: syntax error while parsing: [C[C] 157: [09:22:05] SMARTS Parse Error: check for mistakes around position 3: 157: [09:22:05] [C[C] 157: [09:22:05] ~~^ 157: [09:22:05] SMARTS Parse Error: Failed parsing SMARTS '[C[C]' for input: '[C[C]' 157: [09:22:05] ------------------------------------- 157: [09:22:05] Testing Nested AtomType definitions. 157: [$([$([$([C;!$(C=[O,N,P,S]);!$(C#N)]),c]);R])] 157: [09:22:05] ------------------------------------- 157: [09:22:05] Testing Github Issue #252: crash when calling getPos() with no conformer. 157: [09:22:05] expect a precondition failure message below 157: [09:22:05] 157: 157: **** 157: Pre-condition Violation 157: molecule has no conformers 157: Violation occurred on line 37 in file ./Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.cpp 157: Failed Expression: dp_mol->getNumConformers() 157: ---------- 157: Stacktrace: 157: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 157: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 157: 2# RDKit::MolChemicalFeature::getPos(int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitMolChemicalFeatures.so.1 157: 3# RDKit::MolChemicalFeature::getPos() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitMolChemicalFeatures.so.1 157: 4# 0x0000000000011820 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/testFeatures 157: 5# 0x000000000000ACF3 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/testFeatures 157: 6# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 157: 7# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 157: 8# 0x000000000000AE31 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/testFeatures 157: ---------- 157: **** 157: 157: [09:22:05] Done 157: [09:22:05] ------------------------------------- 157: [09:22:05] Testing github 2077: add confId argument to MolChemicalFeatureFactor::getFeaturesForMol() 157: [09:22:05] done 152/254 Test #157: testFeatures ........................... Passed 0.02 sec test 158 Start 158: pyChemicalFeatures 158: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolChemicalFeatures/Wrap/testChemicalFeatures.py" 158: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap 158: Test timeout computed to be: 7200 158: .[09:22:06] Molecule does not have explicit Hs. Consider calling AddHs() 158: .[09:22:06] Molecule does not have explicit Hs. Consider calling AddHs() 158: ..[09:22:06] Molecule does not have explicit Hs. Consider calling AddHs() 158: .[09:22:06] Molecule does not have explicit Hs. Consider calling AddHs() 158: .[09:22:06] SMARTS Parse Error: syntax error while parsing: [N,O;!HQ] 158: [09:22:06] SMARTS Parse Error: check for mistakes around position 8: 158: [09:22:06] [N,O;!HQ] 158: [09:22:06] ~~~~~~~^ 158: [09:22:06] SMARTS Parse Error: Failed parsing SMARTS '[N,O;!HQ]' for input: '[N,O;!HQ]' 158: ... 158: ---------------------------------------------------------------------- 158: Ran 9 tests in 0.052s 158: 158: OK 153/254 Test #158: pyChemicalFeatures ..................... Passed 0.23 sec test 159 Start 159: testShapeHelpers 159: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers/testShapeHelpers 159: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers 159: Test timeout computed to be: 7200 159: Randomness seeded to: 2961093225 159: =============================================================================== 159: All tests passed (16 assertions in 3 test cases) 159: 154/254 Test #159: testShapeHelpers ....................... Passed 0.02 sec test 160 Start 160: pyShapeHelpers 160: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/ShapeHelpers/Wrap/testShapeHelpers.py" 160: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap 160: Test timeout computed to be: 7200 160: . 160: ---------------------------------------------------------------------- 160: Ran 1 test in 0.035s 160: 160: OK 160: Testing Shape Helpers wrapper 155/254 Test #160: pyShapeHelpers ......................... Passed 0.19 sec test 161 Start 161: testMolCatalog 161: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog/testMolCatalog 161: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog 161: Test timeout computed to be: 7200 156/254 Test #161: testMolCatalog ......................... Passed 0.01 sec test 162 Start 162: pyMolCatalog 162: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolCatalog/Wrap/rough_test.py" 162: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog/Wrap 162: Test timeout computed to be: 7200 162: . 162: ---------------------------------------------------------------------- 162: Ran 1 test in 0.004s 162: 162: OK 157/254 Test #162: pyMolCatalog ........................... Passed 0.09 sec test 163 Start 163: testGaussianShape 163: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape/testGaussianShape 163: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape 163: Test timeout computed to be: 7200 163: Randomness seeded to: 2553040464 163: generating reference data 154: --------------------------------- 154: test O3A multithreading bug 154: 154: --------------------------------- 154: testCrippenO3A multithreading 154: 154: generating reference data 154: processing 154: launch :0 154: launch :1 154: launch :2 154: launch :3 156: .............[09:22:10] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:10] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:10] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:10] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:10] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:10] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:10] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:10] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:10] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:10] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:10] Molecule does not have explicit Hs. Consider calling AddHs() 152: ..........[09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: .[09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: .[09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 152: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 156: ...[09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 156: [09:22:11] Molecule does not have explicit Hs. Consider calling AddHs() 156: ... 156: ---------------------------------------------------------------------- 156: Ran 19 tests in 6.312s 156: 156: OK 156: Testing MolAlign Wrappers 158/254 Test #156: pyMolAlign ............................. Passed 6.50 sec test 164 Start 164: pyShapeAlign 164: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/GaussianShape/Wrap/test_rdgaussian_shape.py" 164: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GaussianShape/Wrap 164: Test timeout computed to be: 7200 164: ......... 164: ---------------------------------------------------------------------- 164: Ran 9 tests in 0.016s 164: 164: OK 159/254 Test #164: pyShapeAlign ........................... Passed 0.18 sec test 165 Start 165: moldraw2DTest1 165: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D/moldraw2DTest1 165: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D 165: Test timeout computed to be: 7200 165: ----------------- Test 1 165: file test1_1.svg gave hash 1778824116U not the expected 1617157703U 165: file test1_2.svg gave hash 4194425583U not the expected 1799670018U 165: file test1_3.svg gave hash 2250867576U not the expected 2382509631U 165: file test1_4.svg gave hash 752076607U not the expected 4252277495U 165: file test1_5.svg gave hash 98043951U not the expected 2811480876U 165: file test1_6.svg gave hash 600058515U not the expected 2635907956U 165: file test1_7.svg gave hash 3912772217U not the expected 3677608850U 165: Done 165: ----------------- Test 2 165: file test2_1.png gave hash 2347956505U not the expected 638584804U 165: file test2_2.png gave hash 3745960116U not the expected 610424244U 165: Done 165: ----------------- Test 4 165: file test4_1.png gave hash 3301010618U not the expected 3993974247U 165: file test4_1.svg gave hash 2275116301U not the expected 4157966746U 165: Done 165: ----------------- Test 5 165: file test5_1.png gave hash 1601784075U not the expected 571291290U 165: file test5_1.svg gave hash 1295559538U not the expected 4074479420U 165: file test5_2.png gave hash 3540007591U not the expected 97265124U 165: file test5_3.png gave hash 1044924090U not the expected 606188176U 165: Done 165: ----------------- Test 6 (atom labels) 165: file test6_1.svg gave hash 3280384589U not the expected 3623418420U 165: file test6_2.svg gave hash 501263637U not the expected 3885689795U 165: file test6_3.svg gave hash 2009537997U not the expected 2753286335U 165: Done 165: ----------------- Test 7 (backgrounds) 165: file test7_1.svg gave hash 843981570U not the expected 1967202587U 165: file test7_1.png gave hash 4166962620U not the expected 1322246680U 165: file test7_2.svg gave hash 282341648U not the expected 4217504234U 165: file test7_2.png gave hash 1622453221U not the expected 1499012715U 165: Done 165: ----------------- Test8: PrepareMolDrawing 165: Done 165: ----------------- Test multi-threaded drawing 165: reading molecules 165: generating reference drawings 165: processing 165: launch :0 165: launch :1 165: launch :2 165: launch :3 152: .... 152: ---------------------------------------------------------------------- 152: Ran 24 tests in 12.396s 152: 152: OK 160/254 Test #152: pyDistGeomHelpers ...................... Passed 12.60 sec test 166 Start 166: moldraw2DTestCatch 166: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D/moldraw2DTestCatch 166: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D 166: Test timeout computed to be: 7200 166: Randomness seeded to: 1372792116 166: file testAtomTags_1.svg gave hash 3542197767U not the expected 3187798125U 166: file testAtomTags_2.svg gave hash 1648758889U not the expected 822910240U 166: file testAtomTags_3.svg gave hash 138975893U not the expected 2244078420U 166: file contourMol_1.svg gave hash 1749387692U not the expected 3634867913U 166: file contourMol_2.svg gave hash 2065423497U not the expected 1815941817U 166: file contourMol_3.svg gave hash 3458913990U not the expected 2579392727U 166: file contourMol_4.svg gave hash 3208914131U not the expected 2914799663U 166: file contourMol_5.svg gave hash 945117169U not the expected 3792684719U 166: file contourMol_6.svg gave hash 1450249302U not the expected 1743220181U 166: file contourMol_7.svg gave hash 4053301088U not the expected 2221193310U 166: file testDativeBonds_2.svg gave hash 3165184388U not the expected 1091476418U 166: file testDativeBonds_2a.svg gave hash 1709593866U not the expected 2463158006U 166: file testDativeBonds_2b.svg gave hash 3846361527U not the expected 3095643972U 166: file testDativeBonds_2c.svg gave hash 349056704U not the expected 1745138239U 166: file testDativeBonds_2d.svg gave hash 132621188U not the expected 3279423301U 166: file testKekulizationProblems_1.svg gave hash 3327452096U not the expected 2284161107U 166: file testAtomBondIndices_1.svg gave hash 616201599U not the expected 2702803018U 166: file testAtomBondIndices_2.svg gave hash 1572186777U not the expected 1564350363U 166: file testAtomBondIndices_3.svg gave hash 2607897548U not the expected 1346662812U 166: file testAtomBondIndices_4.svg gave hash 1781316380U not the expected 662361891U 166: file testAtomBondIndices_5.svg gave hash 793323137U not the expected 1502163147U 166: file testAtomBondIndices_6.svg gave hash 698046127U not the expected 1659568104U 166: file testGithub3226_1.svg gave hash 22593684U not the expected 831257877U 166: file testGithub3226_1.png gave hash 1597879110U not the expected 3165135374U 166: file testGithub3226_2.svg gave hash 4138091576U not the expected 3517325227U 166: file testGithub3226_2.png gave hash 3059296081U not the expected 643975155U 166: file testGithub3226_3.svg gave hash 3404095735U not the expected 3609721552U 166: file testGithub3226_3.png gave hash 128936999U not the expected 3119571946U 166: file testPNGMetadata_1.png gave hash 3267962709U not the expected 997629701U 166: file testPNGMetadata_2.png gave hash 4172354673U not the expected 1797853056U 166: file testGithub3369_1.svg gave hash 3375138088U not the expected 1227653771U 166: file testIncludeRadicals_1a.svg gave hash 1368422441U not the expected 1829641340U 166: file testLegendsAndDrawing-1.svg gave hash 425644958U not the expected 3563802758U 166: file testGithub3577-1.svg gave hash 3105871660U not the expected 763116213U 166: [09:22:13] Font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/ComicNeue-Regular.ttf not found. 166: [09:22:13] Falling back to original font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/Telex-Regular.ttf. 166: file testHandDrawn-1.svg gave hash 4074969183U not the expected 2253418236U 166: [09:22:13] Font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/ComicNeue-Regular.ttf not found. 166: [09:22:13] Falling back to original font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/Telex-Regular.ttf. 166: file testHandDrawn-1.png gave hash 136267576U not the expected 3894611804U 166: [09:22:13] Font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/ComicNeue-Regular.ttf not found. 166: [09:22:13] Falling back to original font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/Telex-Regular.ttf. 166: file testHandDrawn-2.svg gave hash 82393339U not the expected 794717511U 166: [09:22:13] Font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/ComicNeue-Regular.ttf not found. 166: [09:22:13] Falling back to original font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/Telex-Regular.ttf. 166: file testHandDrawn-2.png gave hash 390998954U not the expected 1443443188U 166: [09:22:13] Font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/ComicNeue-Regular.ttf not found. 166: [09:22:13] Falling back to original font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/Telex-Regular.ttf. 166: file testHandDrawn-3.svg gave hash 3132677810U not the expected 3982694296U 166: [09:22:13] Font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/ComicNeue-Regular.ttf not found. 166: [09:22:13] Falling back to original font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/Telex-Regular.ttf. 166: file testHandDrawn-3.png gave hash 1259337299U not the expected 865629432U 166: [09:22:13] Font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/ComicNeue-Regular.ttf not found. 166: [09:22:13] Falling back to original font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/Telex-Regular.ttf. 166: file testHandDrawn-4.svg gave hash 201818655U not the expected 2146113517U 166: [09:22:13] Font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/ComicNeue-Regular.ttf not found. 166: [09:22:13] Falling back to original font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/Telex-Regular.ttf. 166: file testHandDrawn-4.png gave hash 4610946U not the expected 3919767093U 166: file testHandDrawn-5a.svg gave hash 250687918U not the expected 1567781555U 166: [09:22:14] Font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/ComicNeue-Regular.ttf not found. 166: [09:22:14] Falling back to original font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/Telex-Regular.ttf. 166: file testHandDrawn-5b.svg gave hash 440037267U not the expected 66354106U 166: [09:22:14] Font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/ComicNeue-Regular.ttf not found. 166: [09:22:14] Falling back to original font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/Telex-Regular.ttf. 166: file testHandDrawn-5.png gave hash 2091174926U not the expected 828378555U 166: file testBrackets-1a.svg gave hash 64586795U not the expected 4189399574U 166: file testBrackets-1b.svg gave hash 219987106U not the expected 3773894816U 166: file testBrackets-1c.svg gave hash 64586795U not the expected 4189399574U 166: file testBrackets-1d.svg gave hash 219987106U not the expected 3773894816U 166: file testBrackets-1e.svg gave hash 3788532828U not the expected 2492125470U 166: file testBrackets-2a.svg gave hash 574382548U not the expected 1050851904U 166: file testBrackets-2b.svg gave hash 1148554894U not the expected 776446765U 166: file testBrackets-2c.svg gave hash 574382548U not the expected 1050851904U 166: file testBrackets-2d.svg gave hash 1148554894U not the expected 776446765U 166: file testBrackets-3a.svg gave hash 1312826578U not the expected 3096284602U 166: file testBrackets-4a.svg gave hash 4109127586U not the expected 3837821771U 166: file testBrackets-4b.svg gave hash 3897543317U not the expected 1477006167U 166: file testBrackets-5a.svg gave hash 294328997U not the expected 1447240271U 166: file testBrackets-5768.svg gave hash 2223513506U not the expected 2559120196U 166: file testSGroupData-1a.svg gave hash 627746375U not the expected 426096222U 166: file testSGroupData-1b.svg gave hash 2982497807U not the expected 1688385103U 166: file testSGroupData-3a.svg gave hash 713845791U not the expected 62481132U 166: file testSGroupData-2a.svg gave hash 1962776608U not the expected 195363059U 166: file testSGroupData-2b.svg gave hash 1195762135U not the expected 942041938U 166: file testSGroupData-3a.svg gave hash 713845791U not the expected 62481132U 166: file testPositionVariation-1.svg gave hash 3048720516U not the expected 1347003808U 166: file testPositionVariation-1b.svg gave hash 1295098836U not the expected 3269244452U 166: file testPositionVariation-2.svg gave hash 1267344267U not the expected 473948585U 166: file testPositionVariation-3.svg gave hash 762081802U not the expected 4039188982U 166: file testPositionVariation-4.svg gave hash 27316031U not the expected 3407574474U 166: file testNoAtomLabels-1.svg gave hash 574617410U not the expected 4255907058U 166: file testNoAtomLabels-2.svg gave hash 4064826243U not the expected 3643749531U 166: file testQueryBonds-1a.svg gave hash 4014427809U not the expected 1525751327U 166: file testQueryBonds-1b.svg gave hash 2936984779U not the expected 2239724223U 166: file testQueryBonds-1c.svg gave hash 3871378016U not the expected 2434786487U 166: file testQueryBonds-2.svg gave hash 2707675342U not the expected 3399320861U 166: file testLinkNodes-2-0.svg gave hash 4034645063U not the expected 145749789U 166: file testLinkNodes-2-30.svg gave hash 672481277U not the expected 3203923109U 166: file testLinkNodes-2-60.svg gave hash 705226084U not the expected 2004079267U 166: file testLinkNodes-2-90.svg gave hash 3571272174U not the expected 171994932U 166: file testLinkNodes-2-120.svg gave hash 230633195U not the expected 673333745U 166: file testLinkNodes-2-150.svg gave hash 1751250656U not the expected 51965551U 166: file testLinkNodes-2-180.svg gave hash 1099619505U not the expected 433020402U 166: file testMolAnnotations-1.svg gave hash 3934947265U not the expected 1638024035U 166: file testMolAnnotations-2a.svg gave hash 1193917943U not the expected 3029896996U 166: file testMolAnnotations-2b.svg gave hash 2355289578U not the expected 3110016833U 166: file testMolAnnotations-2c.svg gave hash 4122989233U not the expected 611992302U 166: file testMolAnnotations-3a.svg gave hash 1541740048U not the expected 55379064U 166: file testMolAnnotations-3b.svg gave hash 2305193104U not the expected 936144383U 166: file testMolAnnotations-3c.svg gave hash 234130169U not the expected 3983292921U 166: file testMolAnnotations-3d.svg gave hash 981930579U not the expected 748075045U 166: file testMolAnnotations-4a.svg gave hash 981625697U not the expected 3474490519U 166: file testLinkNodes-1-0.svg gave hash 1742740041U not the expected 3845035394U 166: file testLinkNodes-1-30.svg gave hash 290570218U not the expected 3207457801U 166: file testLinkNodes-1-60.svg gave hash 293757258U not the expected 2620138210U 166: file testLinkNodes-1-90.svg gave hash 2184207504U not the expected 1457485851U 166: file testLinkNodes-1-120.svg gave hash 1777381842U not the expected 4267267665U 166: file testLinkNodes-1-150.svg gave hash 3520382532U not the expected 574622776U 166: file testLinkNodes-1-180.svg gave hash 638488040U not the expected 2541146503U 166: file testGithub3744.svg gave hash 1280540500U not the expected 387800653U 166: file testAtomLists-1.svg gave hash 3215681292U not the expected 1887579391U 166: file testAtomLists-2.svg gave hash 539170302U not the expected 555139782U 166: file testIsoDummyIso.svg gave hash 3319443622U not the expected 2405371137U 166: file testNoIsoDummyIso.svg gave hash 1461272805U not the expected 748558214U 166: file testIsoNoDummyIso.svg gave hash 2432588025U not the expected 3054263824U 166: file testNoIsoNoDummyIso.svg gave hash 247862132U not the expected 1185561148U 166: file testHydrogenBonds1.svg gave hash 2225826152U not the expected 2605974904U 166: [09:22:14] unrecognized bond typefile testHydrogenBonds2.svg gave hash 4149192934U not the expected 645414593U 166: file testGithub2976.svg gave hash 1926006038U not the expected 4194649417U 166: file testReactionCoords.svg gave hash 4038343499U not the expected 798999015U 166: file testAnnotationColors.svg gave hash 2161803217U not the expected 3297011749U 166: file testGithub4238_1.svg gave hash 1673589676U not the expected 842841477U 166: file testGithub4238_1.png gave hash 3591221164U not the expected 2623427676U 166: file testGithub4323_1.svg gave hash 3737732114U not the expected 2536621192U 166: file testGithub4323_2.svg gave hash 239576008U not the expected 2120846759U 166: file testGithub4323_3.svg gave hash 1806358430U not the expected 4156867630U 166: file testGithub4323_4.svg gave hash 3413065852U not the expected 3824125601U 166: file testGithub4323_1.png gave hash 3405161235U not the expected 3075787867U 166: file testGithub4323_3.png gave hash 3094652855U not the expected 381907253U 166: file testGithub4508_1.svg gave hash 3997425663U not the expected 2047652713U 166: file testGithub4508_1b.svg gave hash 752613481U not the expected 2681019776U 166: file testGithub4508_2.svg gave hash 140987875U not the expected 1382076550U 166: file testGithub4508_2b.svg gave hash 3248878105U not the expected 4005636724U 166: file testGithub4538.svg gave hash 2600997525U not the expected 2550818801U 166: file testDarkMode.1.svg gave hash 4140885122U not the expected 4157562958U 166: file testMonochrome.1.svg gave hash 1950001511U not the expected 482290994U 166: file testMonochrome.2.svg gave hash 1044275957U not the expected 2128285153U 166: file testAvalon.1.svg gave hash 2114639421U not the expected 477303888U 166: file testCDK.1.svg gave hash 3003822600U not the expected 1764612361U 166: file testGithub4519_1.svg gave hash 2664633857U not the expected 736612670U 166: file testGithub4519_2.svg gave hash 4233313779U not the expected 171503813U 166: file testGithub4519_3.svg gave hash 848820494U not the expected 3396792960U 166: file testGithub4519_4.svg gave hash 441955807U not the expected 3875957215U 166: file testBaseFontSize.1a.svg gave hash 3665607409U not the expected 1295117205U 166: file testBaseFontSize.1b.svg gave hash 1542403068U not the expected 3595811515U 166: file testBaseFontSize.2a.svg gave hash 1704350166U not the expected 2958687877U 166: file testBaseFontSize.2b.svg gave hash 3344593609U not the expected 1786972332U 166: file testFlexiCanvas.1a.svg gave hash 2376791495U not the expected 2633733362U 166: file testFlexiCanvas.1b.svg gave hash 2472371250U not the expected 1541095928U 166: file testFlexiCanvas.1c.svg gave hash 2797251846U not the expected 3204351481U 166: file testFlexiCanvas.1d.svg gave hash 3190671363U not the expected 1753089731U 166: file testFlexiCanvas.2.svg gave hash 937967046U not the expected 665664909U 166: file testFlexiCanvas.2a.png gave hash 2324797879U not the expected 2609920321U 166: file testFlexiCanvas.2b.png gave hash 2746079987U not the expected 3615599154U 166: file testSemiFlexiCanvas.1a.svg gave hash 2472371250U not the expected 1541095928U 166: file testSemiFlexiCanvas.1b.svg gave hash 2474894189U not the expected 3020732451U 166: file testFlexiCanvas.3.svg gave hash 1823015598U not the expected 3544316588U 166: file testFlexiCanvas.4a.svg gave hash 2890365484U not the expected 1486952473U 166: file testFlexiCanvas.4b.svg gave hash 1699806660U not the expected 1957607740U 166: file testFlexiCanvas.4c.svg gave hash 2761686224U not the expected 3955371857U 166: file testFlexiCanvas.4d.svg gave hash 2529848657U not the expected 1137945621U 166: file testFlexiCanvas.5a.svg gave hash 943115690U not the expected 3968863584U 166: file testFlexiCanvas.5b.svg gave hash 625052411U not the expected 649567318U 166: file testFlexiCanvas.5c.svg gave hash 18783706U not the expected 1826396133U 166: file testFlexiCanvas.5d.svg gave hash 4218465262U not the expected 1730603480U 166: file testFlexiCanvas.6a.svg gave hash 2663340644U not the expected 3085867303U 166: file testFlexiCanvas.6b.svg gave hash 3659610260U not the expected 2819164642U 166: file testFlexiCanvas.6c.svg gave hash 2663340644U not the expected 3085867303U 166: file testFlexiCanvas.6d.svg gave hash 2663340644U not the expected 3085867303U 166: file testFlexiCanvas.7a.svg gave hash 673270469U not the expected 514767495U 166: file testFlexiCanvas.7b.svg gave hash 1236589810U not the expected 4275125955U 166: file testFlexiCanvas.7c.svg gave hash 673270469U not the expected 514767495U 166: file testFlexiCanvas.7d.svg gave hash 673270469U not the expected 514767495U 166: file testGithub4764.sz1.svg gave hash 2980200490U not the expected 3611125861U 166: file testGithub4764.sz2.svg gave hash 2415216865U not the expected 1936114454U 166: file testGithub4764.sz3.svg gave hash 667109144U not the expected 2712214121U 166: file testGithub4764.sz1.png gave hash 3220134771U not the expected 2179222277U 166: file testGithub4764.sz2.png gave hash 1916676534U not the expected 444262090U 166: file testGithub4764.sz3.png gave hash 1972277907U not the expected 3567162200U 166: file testDrawArc1.svg gave hash 2570257638U not the expected 3279637525U 166: file testMetalWedges.svg gave hash 2228631642U not the expected 2896721486U 166: file testGithub_5061.svg gave hash 3883907683U not the expected 2050932431U 166: file testGithub_5269_1.svg gave hash 4121819242U not the expected 4160868253U 166: file testGithub_5269_2.svg gave hash 3106933409U not the expected 488926221U 166: file test_classes_wavy_bonds.svg gave hash 717756861U not the expected 1694809514U 166: file github5383_1.svg gave hash 2065423497U not the expected 1815941817U 166: file github5383_2.svg gave hash 1193694137U not the expected 0U 166: file github5383_1.png gave hash 3670416106U not the expected 2893520928U 166: file github5156_1.svg gave hash 369772438U not the expected 2145907703U 166: file github5156_2.svg gave hash 3891486909U not the expected 4184795863U 166: file acs1996_1.svg gave hash 3677925411U not the expected 1111630317U 166: file acs1996_1.png gave hash 3080157530U not the expected 2329725800U 166: file acs1996_2.svg gave hash 505377582U not the expected 908745273U 166: file acs1996_2.png gave hash 3632813237U not the expected 2996350718U 166: file acs1996_3.svg gave hash 2845827029U not the expected 879041204U 166: file acs1996_4.svg gave hash 3298235270U not the expected 1550424006U 166: file acs1996_5.svg gave hash 3187680891U not the expected 3624853279U 166: file acs1996_6.svg gave hash 613141399U not the expected 3810124161U 166: file acs1996_7.svg gave hash 3125982476U not the expected 1113821459U 166: file acs1996_8.svg gave hash 3706567198U not the expected 4110469272U 166: file acs1996_9.svg gave hash 1006094864U not the expected 231896677U 166: file acs1996_10.svg gave hash 2806043399U not the expected 2229333301U 166: file acs1996_11.svg gave hash 734985973U not the expected 4107969968U 166: [09:22:14] 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. 166: file acs1996_12.svg gave hash 1753194475U not the expected 2930884583U 166: file test_unspec_stereo.svg gave hash 738766093U not the expected 3923423666U 166: file light_blue_h_no_label_1.svg gave hash 2420400377U not the expected 1615074554U 166: file bond_highlights_1.svg gave hash 493738089U not the expected 3461339568U 166: file bond_highlights_2.svg gave hash 491854299U not the expected 4196744632U 166: file bond_highlights_3.svg gave hash 557817455U not the expected 1492806612U 166: file bond_highlights_4.svg gave hash 557817455U not the expected 1492806612U 166: file bond_highlights_5.svg gave hash 205679224U not the expected 1018090699U 166: file bond_highlights_6.svg gave hash 1325329976U not the expected 2808634572U 166: file bond_highlights_7.svg gave hash 3869015596U not the expected 2160801877U 166: file bond_highlights_8.svg gave hash 119480419U not the expected 3119784980U 166: file bond_highlights_9.svg gave hash 3952673208U not the expected 3999278931U 166: file testGithub5486_1.svg gave hash 1690505493U not the expected 3146085634U 166: file testGithub5511_1.svg gave hash 3890149295U not the expected 3975118836U 166: file testGithub5511_2.svg gave hash 4270414795U not the expected 1730094503U 166: file test_github_5534.svg gave hash 2321188208U not the expected 4139208597U 166: file test_github5704_1.svg gave hash 2750231117U not the expected 1676917819U 166: file test_github5704_2.svg gave hash 2842843814U not the expected 2959183882U 166: file test_github5704_3.svg gave hash 3877554301U not the expected 1303839406U 166: file test_github5704_4.svg gave hash 1994163028U not the expected 578468407U 166: file test_github5767.svg gave hash 3276045309U not the expected 3943519724U 166: file test_github5947.svg gave hash 1693974265U not the expected 3122633523U 166: file test_github5943.svg gave hash 2101435859U not the expected 1113511714U 166: file test_github5949.svg gave hash 3224019254U not the expected 420848566U 166: file test_github5974.svg gave hash 1343954295U not the expected 1522014196U 166: file test_github5963.svg gave hash 1220635850U not the expected 941197725U 166: file test_github6025.svg gave hash 1204533871U not the expected 2316385019U 166: file test_github6027_1.svg gave hash 3135827679U not the expected 1504848694U 166: file test_github6027_2.svg gave hash 3945179782U not the expected 765638922U 166: file test_github6041b.svg gave hash 762663667U not the expected 444537337U 166: file test_complex_query_atoms_1.svg gave hash 1858963124U not the expected 1058348348U 166: file test_complex_query_atoms_2.svg gave hash 1035480271U not the expected 3820627663U 166: file test_complex_query_atoms_3.svg gave hash 1686043631U not the expected 2574610745U 166: file test_complex_query_atoms_4.svg gave hash 1686043631U not the expected 2574610745U 166: file test_complex_query_atoms_5.svg gave hash 2203803203U not the expected 2239402605U 166: file test_complex_query_atoms_6.svg gave hash 3698041037U not the expected 2784917732U 166: file test_complex_query_atoms_7.svg gave hash 1245832599U not the expected 4016570948U 166: file test_complex_query_atoms_8.svg gave hash 1294989648U not the expected 1215989604U 166: file test_complex_query_atoms_9.svg gave hash 1115198970U not the expected 774489308U 166: file test_complex_query_atoms_10.svg gave hash 2517251618U not the expected 1888858967U 166: file test_complex_query_atoms_11.svg gave hash 3242318807U not the expected 2202417832U 166: file test_complex_query_atoms_12.svg gave hash 1172019267U not the expected 4094464645U 166: file test_complex_query_atoms_13.svg gave hash 1243902839U not the expected 2082462146U 166: file test_complex_query_atoms_14.svg gave hash 144421840U not the expected 3306293765U 166: file test_complex_query_atoms_15.svg gave hash 350162044U not the expected 422354297U 166: file test_complex_query_atoms_16.svg gave hash 2056433870U not the expected 1559600050U 166: file test_github6112.svg gave hash 3041963169U not the expected 3278777629U 166: file test_github6160_1.svg gave hash 1940045167U not the expected 1248002094U 166: file test_github6160_2.svg gave hash 1224306678U not the expected 3845316354U 166: file test_github6160_3.svg gave hash 2489702447U not the expected 332436229U 166: file test_getMolSize.svg gave hash 3903435327U not the expected 894431558U 166: file test_github6200_1.svg gave hash 1445401918U not the expected 1975293465U 166: file test_github6200_2.svg gave hash 1251662961U not the expected 2658818798U 166: file test_queryColour_1.svg gave hash 612698405U not the expected 778322651U 166: file test_queryColour_2.svg gave hash 4016400312U not the expected 45913095U 166: file github6336_1.png gave hash 958785365U not the expected 2958833204U 166: file github6336_1.svg gave hash 1390783959U not the expected 612606818U 166: file github6416.svg gave hash 204958662U not the expected 3814405016U 166: file test_github6397_1.svg gave hash 95073545U not the expected 4203615821U 166: file test_github6397_2.svg gave hash 3804626664U not the expected 2405824082U 166: file test_github6397_3.svg gave hash 4272638606U not the expected 759740391U 166: file test_github6397_4.svg gave hash 259374924U not the expected 3123896712U 166: file test_github6397_5.svg gave hash 649378140U not the expected 148587580U 166: file test_github6400_1.svg gave hash 3669796685U not the expected 2792561051U 166: file github6504_1.svg gave hash 3341951270U not the expected 3649936662U 166: file github6504_2.svg gave hash 4040076192U not the expected 106020287U 166: file github6569_1.svg gave hash 1904338201U not the expected 1698514747U 166: file github6569_2.svg gave hash 3753962909U not the expected 3269796969U 166: file lasso_highlights_1.svg gave hash 1121546855U not the expected 3709434534U 166: file lasso_highlights_2.svg gave hash 1745084972U not the expected 757121560U 166: file lasso_highlights_3.svg gave hash 3885738382U not the expected 556406365U 166: file lasso_highlights_4.svg gave hash 2311902847U not the expected 4148844874U 166: file lasso_highlights_5.svg gave hash 1257474609U not the expected 3920196793U 166: file lasso_highlights_6.svg gave hash 4057458673U not the expected 2113147733U 166: file lasso_highlights_7.svg gave hash 1759335409U not the expected 514868036U 166: file lasso_highlights_8.svg gave hash 2072576322U not the expected 3231367552U 166: file testGithub6685_1.svg gave hash 1504651897U not the expected 1012747673U 166: file testGithub6685_2.svg gave hash 1713867184U not the expected 4003431099U 166: file testGithub6685_3.svg gave hash 2719598400U not the expected 3019254647U 166: file testGithub6685_4.svg gave hash 2918045171U not the expected 1239628830U 166: file bad_lasso_1.svg gave hash 1507966996U not the expected 726527516U 166: file AtropCanon1.svg gave hash 2807453059U not the expected 1371378369U 166: file AtropManyChiralsEnhanced.svg gave hash 2569972011U not the expected 2256768013U 166: file testGithub6968.svg gave hash 2416693956U not the expected 577496246U 166: file testGithub7036_2.svg gave hash 2093741698U not the expected 2411796331U 166: file testGithub7036_1.svg gave hash 1700645568U not the expected 303621762U 166: file testWedgeNonSingleBonds-1.svg gave hash 1476167396U not the expected 2116685919U 166: file testWedgeNonSingleBonds-2.svg gave hash 465473374U not the expected 1174395532U 166: file testWedgeNonSingleBonds-3.svg gave hash 352082831U not the expected 2542970771U 166: file testWedgeNonSingleBonds-4.svg gave hash 1744898749U not the expected 700876833U 166: file testWedgeNonSingleBonds-5.svg gave hash 725983439U not the expected 2012191155U 166: file testWedgeNonSingleBonds-6.svg gave hash 478779300U not the expected 2517061935U 166: file testWedgeNonSingleBonds-7.svg gave hash 1857386186U not the expected 157069219U 166: file testWedgeNonSingleBonds-8.svg gave hash 1462975976U not the expected 3431784338U 166: file testWedgingShouldBeOnSingleBond.svg gave hash 518479263U not the expected 1002741488U 166: file testDuplicateEnhancedStereoLabelsAddAnnotationFalse.svg gave hash 596604646U not the expected 2980189527U 166: file testDuplicateEnhancedStereoLabelsAddAnnotationTrue.svg gave hash 596604646U not the expected 1462263453U 166: file testComplexQueryAtomMap.svg gave hash 731750175U not the expected 722421835U 166: file testHighlightHeteroAtoms_1.svg gave hash 3832901829U not the expected 1769258632U 166: file testHighlightHeteroAtoms_2.svg gave hash 1864599U not the expected 893937335U 166: file testGithub_7739_1.svg gave hash 1208363783U not the expected 2615562225U 166: file testGithub_7739_2.svg gave hash 4174704494U not the expected 2225049332U 166: file testGithub_7739_3.svg gave hash 3435737283U not the expected 1037942338U 166: file testGithub_7739_4.svg gave hash 2004483355U not the expected 3549083171U 166: file testGithub_7739_5.svg gave hash 3748355106U not the expected 1114216032U 166: file testAtomAbbreviationsClash.svg gave hash 222225321U not the expected 1847939197U 166: file testBlackAtomsUnderHighlight.svg gave hash 1437801379U not the expected 3916069581U 166: file testSmallReactionCanvas.svg gave hash 3804043089U not the expected 2238356155U 166: file testReactionProductSmoothCorners.svg gave hash 2428343425U not the expected 882352670U 166: file testOptionalAtomListBrackets_1.svg gave hash 2629253919U not the expected 4239908626U 166: file testOptionalAtomListBrackets_2.svg gave hash 562987240U not the expected 3881772214U 166: file testOptionalAtomListBrackets_3.svg gave hash 3781855073U not the expected 2945415850U 166: file testReactionPanels.svg gave hash 243117458U not the expected 1616500155U 166: file testComponentPadding_1.svg gave hash 2539237118U not the expected 2488754565U 166: file testComponentPadding_2.svg gave hash 925491470U not the expected 2544322406U 165: Done 165: ----------------- Test Github #781: Rendering single-atom molecules 165: file testGithub781_3.svg gave hash 1424857602U not the expected 1463918610U 165: Done 165: ----------------- Test 3 165: file test3_1.png gave hash 2371791888U not the expected 675908852U 165: file test3_1.svg gave hash 1328776415U not the expected 586189704U 165: file test3_2.png gave hash 1022876231U not the expected 2452584093U 165: file test3_2.svg gave hash 1481229521U not the expected 1700916148U 165: file test3_3.png gave hash 3643959779U not the expected 1907006999U 165: file test3_3.svg gave hash 2929562003U not the expected 1375178959U 165: file test3_4.png gave hash 2721700104U not the expected 2305641511U 165: file test3_4.svg gave hash 587248216U not the expected 187720898U 165: file test3_5.png gave hash 2926123125U not the expected 3842605920U 165: file test3_5.svg gave hash 3715989801U not the expected 300865579U 165: file test3_6.png gave hash 2458317949U not the expected 662622011U 165: file test3_6.svg gave hash 1726487728U not the expected 729637096U 165: file test3_7.png gave hash 75179292U not the expected 469729412U 165: file test3_7.svg gave hash 3296007169U not the expected 2700118064U 165: Done 165: ----------------- Test Github774: upside-down drawings 165: file test774_1.png gave hash 918698846U not the expected 428322245U 165: file test774_1.svg gave hash 2253586694U not the expected 1108618931U 165: file test774_2.png gave hash 1491082615U not the expected 4095288521U 165: file test774_2.svg gave hash 439562358U not the expected 577567569U 165: Done 165: ----------------- Test 9 (molecule legends) 165: file test9_1.svg gave hash 1315528346U not the expected 1484349178U 165: Done 165: ----------------- Test Github852: Lines used to wedge bonds are too thick 165: file test852_1.png gave hash 1258777698U not the expected 271517011U 165: file test852_1.svg gave hash 508042113U not the expected 2306783336U 166: file testAtomAndBondLabels_1.svg gave hash 3854792861U not the expected 288825710U 165: file test852_2.png gave hash 1447959431U not the expected 967452082U 166: file testAtomAndBondLabels_2.svg gave hash 4131152872U not the expected 3501435082U 165: file test852_2.svg gave hash 3180584172U not the expected 936665195U 165: ---------------- 166: file testAtomAndBondLabels_3.svg gave hash 934726898U not the expected 3056536314U 165: file test852_2a.svg gave hash 610090043U not the expected 3499587182U 165: ---------------- 165: file test852_2b.svg gave hash 612009757U not the expected 2141021605U 165: ---------------- 165: file test852_2c.svg gave hash 1810307389U not the expected 465009830U 165: ---------------- 165: file test852_2d.svg gave hash 2006622378U not the expected 714117851U 165: Done 165: ----------------- Test Github860: Atom symbols in wrong order if bond comes from right 166: file testAtomAndBondLabels_4.svg gave hash 1457363143U not the expected 229616498U 166: file testStandardColoursHighlightedAtoms_1.svg gave hash 3813740493U not the expected 4265528904U 166: file testStandardColoursHighlightedAtoms_2.svg gave hash 2777470956U not the expected 2285000572U 165: file test860_1.png gave hash 1038754925U not the expected 2835587240U 165: file test860_1.svg gave hash 718471937U not the expected 4071399203U 166: file testArrowheads.svg gave hash 177824424U not the expected 3318006834U 165: file test860_2.png gave hash 2273285213U not the expected 1116015475U 165: file test860_2.svg gave hash 4123557700U not the expected 3926063275U 166: file testOffsetHighlightedMols.svg gave hash 2819442794U not the expected 3147614756U 165: file test860_3.png gave hash 2417083048U not the expected 1872467868U 165: file test860_3.svg gave hash 1139264144U not the expected 2583192182U 165: Done 165: ----------------- Test Github #910: ugly coordinates generated for peptide chains 165: file test910_1.svg gave hash 285277080U not the expected 2101353772U 166: =============================================================================== 166: All tests passed (6927 assertions in 124 test cases) 166: 165: file test910_2.svg gave hash 2184604098U not the expected 3090433026U 165: Done 165: ----------------- Test Github #932: mistake in SVG for wedged bonds 165: Done 165: ----------------- Test Github #953: default color should not be cyan 165: Done 165: ----------------- Test Github #983: wedged bonds between chiral centers drawn improperly 165: file test983_1.svg gave hash 977581182U not the expected 2373378601U 165: file test983_2.svg gave hash 1176297024U not the expected 2571223561U 165: Done 165: ----------------- Test Deuterium, Tritium 161/254 Test #166: moldraw2DTestCatch ..................... Passed 1.99 sec test 167 Start 167: moldraw2DRxnTest1 167: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D/moldraw2DRxnTest1 167: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D 167: Test timeout computed to be: 7200 165: Done 165: ----------------- Test crossed bonds 165: file crossed_bonds.svg gave hash 2357548724U not the expected 3239666213U 165: Done 165: ----------------- Testing drawing a second molecule 165: file test10_1.svg gave hash 3149901024U not the expected 502155973U 165: file test10_2.svg gave hash 762048470U not the expected 3289667916U 165: file test10_3.svg gave hash 2365222328U not the expected 2681596657U 165: file test10_4.svg gave hash 1082559408U not the expected 2620790292U 165: file test10_5.svg gave hash 955314118U not the expected 2715569518U 165: file test10_6.svg gave hash 3863669925U not the expected 2984792612U 165: Done 165: ----------------- Testing drawing a grid of molecules 165: file test11_1.svg gave hash 3601626927U not the expected 568621130U 165: file test11_2.svg gave hash 1521354254U not the expected 1278518938U 165: Done 165: ----------------- Testing drawMolecules 165: file test12_1.svg gave hash 4028792270U not the expected 826649652U 167: ----------------- Test 1 165: file test12_5.svg gave hash 1875700774U not the expected 3309074342U 165: file test12_3.svg gave hash 445413354U not the expected 3930752601U 167: file rxn_test1_1.png gave hash 2553359381U not the expected 801892091U 167: file rxn_test1_1.svg gave hash 4009324290U not the expected 4280849065U 165: file test12_4.svg gave hash 445413354U not the expected 3930752601U 165: file test12_2.svg gave hash 1695806469U not the expected 3096703157U 165: Done 165: ----------------- Test JSON Configuration 165: file test13_1.svg gave hash 3001826499U not the expected 3606927863U 165: Done 165: ----------------- Testing github 1090: escape html characters in SVG output 165: file testGithub1090_1.svg gave hash 3058378332U not the expected 874921274U 165: Done 165: ----------------- Testing github 1035: overflow bug in SVG color generation 165: Done 167: file rxn_test1_2.png gave hash 1493346776U not the expected 507435337U 165: ----------------- Testing github 1271: MolDraw2D not drawing anything for molecules aligned with the X or Y axes 165: file test1271_5.svg gave hash 3855066381U not the expected 1050442325U 165: Done 165: ----------------- Testing github 1322: add custom atom labels 165: file test1322_1.svg gave hash 2824698286U not the expected 843693353U 167: file rxn_test1_2.svg gave hash 2514884694U not the expected 2640646320U 165: file test1322_2.svg gave hash 640964154U not the expected 2204609576U 165: Done 165: ----------------- Testing use of a black & white palette 165: file test14_1.svg gave hash 2593240709U not the expected 3999745197U 165: file test14_2.svg gave hash 1180313442U not the expected 1367250174U 165: Done 165: ----------------- Testing use of continuous highlighting with drawMolecules 165: file test15_1.svg gave hash 2305259583U not the expected 2704862730U 167: file rxn_test1_3.png gave hash 954730847U not the expected 1590809137U 165: file test15_2.svg gave hash 2442984749U not the expected 659023204U 167: file rxn_test1_3.svg gave hash 3972431910U not the expected 2781928588U 165: Done 165: ----------------- Test 17 - Testing maximum font size 165: file test17_1.svg gave hash 2260184712U not the expected 75329691U 165: file test17_2.svg gave hash 659077001U not the expected 2699803606U 165: file test17_3.svg gave hash 1926066932U not the expected 2996396838U 165: file test17_4.svg gave hash 4133942323U not the expected 2390212603U 165: Done 165: ----------------- Testing github 1829: crash when drawMolecules() is called with an empty list 165: Done 165: ----------------- Testing use of fixed scales for drawing. 165: file test18_1.svg gave hash 3803337242U not the expected 1704156856U 167: file rxn_test1_4.png gave hash 4115718635U not the expected 1766700542U 165: file test18_2.svg gave hash 1162085066U not the expected 597526679U 167: file rxn_test1_4.svg gave hash 3302650972U not the expected 437863065U 165: file test18_3.svg gave hash 1966017028U not the expected 3425044116U 165: file test18_4.svg gave hash 3233967183U not the expected 1519252882U 167: file rxn_test1_5.png gave hash 4268498744U not the expected 2552100594U 165: file test18_5.svg gave hash 766089485U not the expected 486224214U 167: file rxn_test1_5.svg gave hash 1025161507U not the expected 3590497359U 165: file test18_6.svg gave hash 2159164255U not the expected 3016814772U 165: file test18_7.svg gave hash 2984965086U not the expected 926168958U 165: Done 165: ----------------- Testing rotation of 2D drawing. 165: file test19_1.svg gave hash 407580005U not the expected 4060393720U 165: file test19_2.svg gave hash 2240088107U not the expected 4171949096U 165: Done 165: ----------------- Testing inclusion of molecule metadata 165: file test16_1.svg gave hash 1487161020U not the expected 62134348U 165: file test16_2.svg gave hash 3657075269U not the expected 3050459518U 165: Done 165: ----------------- Testing Github2063: Drawing racemic bond stereo as crossed bonds should be the default 165: file testGithub2063_1.svg gave hash 992781977U not the expected 1908318348U 165: file testGithub2063_2.svg gave hash 992781977U not the expected 1908318348U 165: Done 165: ----------------- Testing Github2151: MolDraw2D: line width should be controlled by MolDrawOptions 165: file testGithub2151_1.svg gave hash 774202062U not the expected 4119581143U 165: file testGithub2151_2.svg gave hash 2862596496U not the expected 425960913U 165: Done 165: ----------------- Testing testGithub2762: MolDraw2D: HCl and ethane should be drawn 165: Done 165: ----------------- Testing testGithub2931: multi-coloured molecule highlights. 167: file rxn_test1_6.png gave hash 1126625625U not the expected 3791582903U 165: file testGithub2931_1.svg gave hash 1667215643U not the expected 3635831631U 167: file rxn_test1_6.svg gave hash 4053328930U not the expected 3289415410U 165: file testGithub2931_2.svg gave hash 1220957292U not the expected 2281185190U 165: file testGithub2931_3.svg gave hash 3335033438U not the expected 2885834646U 165: file testGithub2931_4.svg gave hash 3314950045U not the expected 709559976U 165: Done 165: ----------------- Testing annotation of 2D Drawing. 167: file rxn_test1_7.png gave hash 3242981U not the expected 1461397406U 167: file rxn_test1_7.svg gave hash 808507705U not the expected 1831465890U 167: Done 167: ----------------- Test 2: some examples that caused problems in testing 165: file test20_1.png gave hash 3959191776U not the expected 200877868U 167: file rxn_test2_1.png gave hash 334816895U not the expected 3551633840U 165: file test20_1.svg gave hash 2129450275U not the expected 4276517022U 165: file test20_2.png gave hash 4229185012U not the expected 1651164846U 167: file rxn_test2_1.svg gave hash 4234020013U not the expected 3702350010U 167: 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 165: file test20_2.svg gave hash 2507367286U not the expected 2037634551U 167: file rxn_test2_2_1.png gave hash 1488920884U not the expected 1268122583U 165: file test20_3.png gave hash 1330612476U not the expected 1463603076U 167: file rxn_test2_2_1.svg gave hash 502949782U not the expected 3044844617U 167: 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 165: file test20_3.svg gave hash 2727796707U not the expected 2689385188U 167: file rxn_test2_2_2.png gave hash 3720346713U not the expected 82821108U 165: file test20_4.png gave hash 2929647856U not the expected 1714613205U 167: file rxn_test2_2_2.svg gave hash 4127440557U not the expected 269990608U 167: 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 167: 2 C3)c4cccc(c4Cl)Cl CCc1nc(c(n1c2ccccc2)C)C(=O)NCCN3CCN(CC3)c4cccc(c4Cl)Cl 167: 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 165: file test20_4.svg gave hash 3418327955U not the expected 4113839132U 165: Done 165: ----------------- Test 21 - different font 165: file test21_1.svg gave hash 125298691U not the expected 390968884U 167: file rxn_test2_2_3.png gave hash 1665447488U not the expected 3828365604U 165: file test21_2.svg gave hash 1375465863U not the expected 3050176664U 165: Done 165: ----------------- Test 22 - draw explicit methyls. 165: file test22_1.svg gave hash 3426768357U not the expected 3688394300U 165: file test22_2.svg gave hash 1936546203U not the expected 1963311622U 165: Done 165: ----------------- Testing drawing of legends. 167: file rxn_test2_2_3.svg gave hash 919584688U not the expected 2459428150U 167: 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 165: Done 165: ----------------- Test Github 3305 - change and scale line widths. 165: file testGithub3305_1.svg gave hash 3426768357U not the expected 3688394300U 167: file rxn_test2_2_4.png gave hash 351365676U not the expected 1230108677U 165: file testGithub3305_2.svg gave hash 193465986U not the expected 3172298658U 165: file testGithub3305_3.svg gave hash 3399005512U not the expected 30441258U 167: file rxn_test2_2_4.svg gave hash 3281489242U not the expected 2528579930U 167: Done 167: ----------------- Test 3: test reactant highlighting 165: file testGithub3305_1.png gave hash 2415391681U not the expected 3303791649U 165: file testGithub3305_2.png gave hash 4214396484U not the expected 4003267433U 167: file rxn_test3_1.png gave hash 878176932U not the expected 4189980366U 167: file rxn_test3_1.svg gave hash 877224337U not the expected 2912956802U 167: Done 167: ----------------- Test 4: some examples from SMARTS in testing 167: draw! 165: file testGithub3305_3.png gave hash 3643645813U not the expected 273338209U 165: file testGithub3305_4.png gave hash 2926123125U not the expected 3842605920U 165: file testGithub3305_4.svg gave hash 3715989801U not the expected 300865579U 167: file rxn_test4_1.png gave hash 1966202158U not the expected 2745201873U 167: file rxn_test4_1.svg gave hash 780045921U not the expected 1758099294U 167: done 165: file testGithub3305_5.png gave hash 995509084U not the expected 151279576U 165: file testGithub3305_5.svg gave hash 546612276U not the expected 1335449325U 165: file testGithub3305_6.png gave hash 3780950210U not the expected 613418460U 165: file testGithub3305_6.svg gave hash 1796737045U not the expected 4242832627U 165: file testGithub3305_7.png gave hash 1548703876U not the expected 2835747678U 165: file testGithub3305_7.svg gave hash 1522625404U not the expected 1080046861U 165: Done 165: ----------------- Test Github 3391 - maxFontSize interacting badly with DrawMolecules. 165: file testGithub3391_2.svg gave hash 642361821U not the expected 1941002529U 165: file testGithub3391_3.svg gave hash 157947688U not the expected 2929587661U 165: file testGithub3391_4.svg gave hash 86190467U not the expected 3877564580U 165: Done 165: ----------------- Test Github 4156 - bad scale for radicals in grid 165: file testGithub4156_1.svg gave hash 1613254088U not the expected 3897707793U 167: file rxn_test4_2.png gave hash 2553357786U not the expected 3094925886U 165: file testGithub4156_2.svg gave hash 3100386353U not the expected 2067399849U 165: Done 165: ----------------- Test JSON atomColourPalette 165: file test23_1.svg gave hash 724753536U not the expected 244577595U 165: Done 165: ----------------- Test draw aromatic OR queries 165: Done 165: ----------------- Test AND queries 165: Done 167: file rxn_test4_2.svg gave hash 2289223715U not the expected 3493436271U 167: Done 162/254 Test #165: moldraw2DTest1 ......................... Passed 3.33 sec test 168 Start 168: pyMolDraw2D 168: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Wrap/testMolDraw2D.py" 168: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap 168: Test timeout computed to be: 7200 163/254 Test #167: moldraw2DRxnTest1 ...................... Passed 0.23 sec test 169 Start 169: testFMCS 169: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/testFMCS 169: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS 169: Test timeout computed to be: 7200 168: ...[09:22:15] Font file /build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolDraw2D/Amadeus.ttf not found. 168: [09:22:15] Falling back to original font file /build/reproducible-path/rdkit-202603.2/Data/Fonts/Telex-Regular.ttf. 168: ............[09:22:15] 168: 168: **** 168: Pre-condition Violation 168: molecule must not be None 168: Violation occurred on line 432 in file ./Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp 168: Failed Expression: m 168: ---------- 168: Stacktrace: 168: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 168: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 168: 2# RDKit::prepMolForDrawing(RDKit::ROMol const*, bool, bool, bool, bool, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/Draw/rdMolDraw2D.so 168: 3# boost::python::objects::caller_py_function_impl, boost::mpl::vector7 > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/Draw/rdMolDraw2D.so 168: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 168: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 168: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 168: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 168: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 168: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 168: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 168: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 168: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 168: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 168: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 168: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 168: 16# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 168: 17# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 168: 18# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 168: 19# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 168: 20# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 168: 21# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 168: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 168: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 168: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 168: 25# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 168: 26# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 168: 27# _PyObject_MakeTpCall in /usr/bin/python3 168: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 168: 29# 0x00000000001DD0A7 in /usr/bin/python3 168: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 168: 31# 0x00000000002A967B in /usr/bin/python3 168: 32# 0x000000000024191D in /usr/bin/python3 168: 33# _PyObject_MakeTpCall in /usr/bin/python3 168: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 168: 35# 0x00000000001DD0A7 in /usr/bin/python3 168: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 168: 37# 0x00000000002A967B in /usr/bin/python3 168: 38# 0x000000000024191D in /usr/bin/python3 168: 39# _PyObject_MakeTpCall in /usr/bin/python3 168: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 168: 41# 0x00000000001DD0A7 in /usr/bin/python3 168: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 168: 43# 0x00000000002A967B in /usr/bin/python3 168: 44# 0x000000000024191D in /usr/bin/python3 168: 45# _PyObject_MakeTpCall in /usr/bin/python3 168: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 168: 47# 0x00000000001AE9E2 in /usr/bin/python3 168: 48# _PyObject_MakeTpCall in /usr/bin/python3 168: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 168: 50# PyEval_EvalCode in /usr/bin/python3 168: 51# 0x00000000002C1C44 in /usr/bin/python3 168: 52# 0x00000000002BEBDF in /usr/bin/python3 168: 53# 0x00000000002D0454 in /usr/bin/python3 168: 54# 0x00000000002CFEE9 in /usr/bin/python3 168: 55# 0x00000000002CFD1E in /usr/bin/python3 168: 56# Py_RunMain in /usr/bin/python3 168: 57# Py_BytesMain in /usr/bin/python3 168: 58# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 168: 59# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 168: 60# _start in /usr/bin/python3 168: ---------- 168: **** 168: 168: ......................... 168: ---------------------------------------------------------------------- 168: Ran 40 tests in 0.139s 168: 168: OK 168: json lasso 164/254 Test #168: pyMolDraw2D ............................ Passed 0.35 sec test 170 Start 170: testFMCSCatch 170: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/testFMCSCatch 170: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS 170: Test timeout computed to be: 7200 170: Randomness seeded to: 3159944263 170: Query C1CCCC1 5(5) atoms, 5(5) bonds 170: 1 Seeds:6 MCS 4 atoms, 3 bonds for 0.0001 seconds. bond[0]=0 170: 2 Seeds:8 MCS 5 atoms, 4 bonds for 0.0002 seconds. bond[0]=0 170: 3 Seeds:7 MCS 5 atoms, 4 bonds for 0.0002 seconds. bond[0]=0 170: 4 Seeds:6 MCS 5 atoms, 4 bonds for 0.0002 seconds. bond[0]=0 170: 7 Seeds:7 MCS 5 atoms, 4 bonds for 0.0002 seconds. bond[0]=0 170: 8 Seeds:6 MCS 5 atoms, 4 bonds for 0.0002 seconds. bond[0]=0 170: 10 Seeds:6 MCS 5 atoms, 4 bonds for 0.0002 seconds. bond[0]=0 170: 11 Seeds:5 MCS 5 atoms, 4 bonds for 0.0002 seconds. bond[0]=0 170: 14 Seeds:5 MCS 5 atoms, 4 bonds for 0.0002 seconds. bond[0]=1 170: 15 Seeds:4 MCS 5 atoms, 4 bonds for 0.0002 seconds. bond[0]=1 170: Target 1 MISMATCHED C1CCCCC1 170: STATISTICS: 170: Total Growing Steps = 18, MCS found on 15 step, for 0.0002 seconds 170: Initial Seeds = 5, Mismatched 0 170: Inspected Seeds = 22 170: Rejected by BestSize = 3 170: IndividualBondExcluded = 0 170: MatchCheck Seeds = 22 170: MatchCalls = 5 170: MatchFound = 4 170: fastMatchCalls = 4 170: fastMatchFound = 3 170: slowMatchCalls = 2 170: slowMatchFound = 1 170: DupCacheFound = 4 0 matched, 4 mismatched 170: HashCache size = 4 keys 170: HashCache size = 4 entries 170: FindHashInCache = 18 170: HashFoundInCache= 13 170: ExactMatchCalls = 13 170: ExactMatchFound = 13 170: =============================================================================== 170: All tests passed (5 assertions in 1 test case) 170: 165/254 Test #170: testFMCSCatch .......................... Passed 0.02 sec test 171 Start 171: pyFMCS 171: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/FMCS/Wrap/testFMCS.py" 171: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/Wrap 171: Test timeout computed to be: 7200 154: --------------------------------- 154: test getO3AForProbeConfs 154: 154: *********************************************************** 166/254 Test #154: testO3AAlign ........................... Passed 13.99 sec test 172 Start 172: FMCStest 172: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/Test/FMCStest 172: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/FMCS/Test 172: Test timeout computed to be: 7200 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_15113.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_16613.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_30745.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_30861.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_31495.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_34869.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_36158.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_36559.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_37434.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_39147.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_43754.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_44011.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_44158.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_48076.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_48961.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_49648.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_49703.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_51128.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_51343.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_51842.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_54554.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_100_55749.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_17256.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_20244.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_20245.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_30149.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_30499.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_36186.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_39262.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_43966.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_45279.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_48029.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_49064.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_49801.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_50681.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_54039.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_58265.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_58358.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_58866.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10188_60810.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_21358.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_21597.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_30111.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_30349.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_31746.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_31822.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_35220.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_37603.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_37964.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_39508.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_42164.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_42577.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_44072.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_45522.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_46700.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_46719.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_46744.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_48517.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_49087.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_50034.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_51475.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_53483.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_53506.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_54598.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_55614.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_55737.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_57090.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_57705.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_57785.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_58463.txt 172: 172: testChEMBfopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: L_Txt() chembl_II_sets/Target_no_10193_58700.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_61003.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10193_61349.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10260_38526.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10260_50778.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10260_52179.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10260_54285.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_30224.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_31222.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37349.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37369.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37465.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_37541.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_38371.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_44314.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_44578.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_45765.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_46281.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_47928.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_50624.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_51341.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_51662.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_51767.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_53081.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_53396.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_53407.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_58823.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_59190.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_60672.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10280_61176.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10434_20905.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10434_30074.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10434_30175.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10434_30423.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10434_31555.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10434_34878.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10434_35926.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10434_42168.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_20859.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_30060.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_30061.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_30606.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_30866.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_31249.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_34921.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_35188.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_36636.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_37466.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_39202.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_43952.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_49345.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_49591.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_49854.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_51416.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_53537.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_58879.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_60679.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_107_61269.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_20600.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_20859.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_30060.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_30606.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_30866.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_31558.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_35188.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_37466.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_43875.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_48911.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_49591.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_49854.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: no_108_57887.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_60679.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_108_6857.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_15478.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_20853.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30840.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30862.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30918.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_30994.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_31014.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_31508.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_31623.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35003.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35004.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35281.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_35957.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_36520.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_36641.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_38586.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_44431.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_45093.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_51302.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_5247.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_52937.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_57198.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_5739.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_10980_6535.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_20205.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_20986.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_30091.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_34698.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_34705.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_37038.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_37272.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_37447.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_38909.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_38953.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_39472.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_45825.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_47179.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_49028.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_49860.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_51984.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_53395.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_53826.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_54121.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_54530.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_55738.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_57725.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11140_58590.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11365_20432.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11365_30331.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11365_37956.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11365_48114.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11365_58566.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_34731.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_34818.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_37318.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_37339.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_37564.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_39504.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_39561.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_46082.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_46089.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_47349.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_47757.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_51593.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_54754.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_58262.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11489_58958.txt 172: 172: testChEMBL_Txt(fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: ) chembl_II_sets/Target_no_114_16827.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_20503.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_20724.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_30254.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_30321.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_30572.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_31116.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_31281.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_31443.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_34747.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_34920.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_35040.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_36623.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_37136.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_37208.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_38298.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_38554.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_39088.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_39543.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_44049.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_44562.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_45180.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_45867.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_46087.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_46829.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_47546.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_48395.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_50461.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_50765.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_51669.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_52381.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_57231.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_114_58246.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11534_30999.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11534_31021.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11534_31650.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11534_35011.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11534_37014.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11534_44598.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11534_48446.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11534_50614.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11534_50615.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11534_50618.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11534_51950.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11575_31616.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11575_38381.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11575_45757.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11575_46816.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11575_50701.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11575_54049.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11575_57890.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11575_61045.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11631_30194.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11631_31421.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11631_35538.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11631_55727.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11631_60676.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11631_61130.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_11631_6444.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_15623.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_20096.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_21591.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_30184.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_30380.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_30745.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_30861.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_31619.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_34869.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_35284.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_36158.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_36915.txt 172: 172: testChEMBL_Txfopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: t() chembl_II_sets/Target_no_121_37434.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_37541.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_37677.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_38837.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_39530.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_43793.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_44158.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_44164.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_44579.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_44593.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_44692.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_44914.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_45878.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_48050.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_48706.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_48944.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_48961.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_49880.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_50055.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_50512.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_51064.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_53537.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_55749.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_58879.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_121_6876.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12209_44664.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12209_46451.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12209_50640.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12209_56102.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12209_58015.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12209_59089.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12209_59092.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12209_61340.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12252_31458.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12252_38481.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12252_42104.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12252_49475.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12252_49933.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12252_50558.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_126_37249.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_126_39117.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_126_48227.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_126_48229.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_126_53969.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_126_54262.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_126_55353.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_126_61212.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20250.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20506.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20626.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_20689.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_21358.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_30158.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_30349.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_34843.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_35220.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_36318.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_36800.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_39349.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_45385.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_45676.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_46700.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_46719.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_48517.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_52690.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_53483.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_55435.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_56102.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_58015.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_12952_58375.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_1295fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: 2_58700.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_13001_16724.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_13001_2710.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_13001_30128.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_13001_31250.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_13001_35519.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_13001_36905.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_13001_46788.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_13001_4737.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_13001_55736.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_13001_57473.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_16146.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_30313.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_30539.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_30653.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_30988.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_31179.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_31339.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_3525.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_36886.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_37020.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_38128.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_43952.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_45210.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_45899.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_47889.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_51800.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_53158.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_5330.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_55648.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_56096.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_57287.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_57399.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_57606.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_58470.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_130_60894.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_15010.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_20304.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_20542.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_20788.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_21358.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_30349.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_31103.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_31764.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_31822.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_35220.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_37964.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_42164.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_44072.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_45522.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_46719.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_46744.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_48416.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_49740.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_50034.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_50640.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_53483.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_53506.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_53814.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_55435.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_56074.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_56107.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_57090.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_57705.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_57785.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_57861.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_58583.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_59089.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_15_59092.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_20600.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_30764.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_34876.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_37427.tfopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: xt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_38266.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_45283.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_46990.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_47123.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_47900.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_48050.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_48062.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_48076.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_50718.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_50972.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_51372.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_51830.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_53049.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_53505.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_54021.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_54565.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_54570.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_57666.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_57890.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_58072.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_58634.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_58643.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_59080.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_59202.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_59346.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_60379.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_60385.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_165_61098.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_17045_31154.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_17045_35648.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_17045_48914.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_17045_51975.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_17045_52435.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_17045_55790.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_17045_58958.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_17045_61146.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20191.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20562.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20606.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_20607.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30003.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30402.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30726.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_30924.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31457.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31460.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31600.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31620.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31640.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31782.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31797.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31829.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_31856.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_34690.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_34691.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_34694.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_35712.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_37497.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_37539.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48070.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48219.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48824.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_48902.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_52867.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_53534.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_54570.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_58727.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_60159.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_19905_60661.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_30037.txt 172: 172: testChEMBL_Txt() chefopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: mbl_II_sets/Target_no_259_34734.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_35365.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_35787.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_36793.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_37845.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_38328.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_39374.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_43936.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_44059.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_44405.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_44424.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_45166.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_46158.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_46425.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_47187.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_48435.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_48817.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_48849.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_48957.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_48965.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_49519.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_49921.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_50392.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_50972.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_52405.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_52442.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_53169.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_54640.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_57207.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_58537.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_58920.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_259_60358.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_25_16077.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_25_34943.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_25_36391.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_25_36574.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_25_52906.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_25_54642.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_16385.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_20333.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_20774.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_35825.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_37637.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_47741.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_48567.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_48841.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_49589.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_50564.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_51201.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_53150.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_55747.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_43_58276.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_20813.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_2331.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_2391.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_30374.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_30512.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_30796.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_31058.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_31450.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_36609.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_36636.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_38266.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_43800.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_47621.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_49433.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_49550.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_49865.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_51005.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_52373.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_53878.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_54554.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_57508.txtfopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_57618.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_59484.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_51_6563.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_61_16845.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_61_37106.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_61_37272.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_61_47947.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_61_50754.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_61_55800.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_61_57380.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_65_35328.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_65_36137.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_65_38826.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_65_44596.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_65_51275.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_65_55671.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_20155.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_30616.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_30653.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_30988.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_31339.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_31527.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_31631.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_36047.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_36568.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_36636.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_37020.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_38128.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_43952.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_45210.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_47889.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_51064.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_51800.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_5330.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_57508.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_58470.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_72_60894.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_20730.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_20753.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_30097.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_30663.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_35365.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_35375.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_35918.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_36010.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_36780.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_36793.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_37845.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_39110.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_39546.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_43936.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_44405.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_44424.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_44683.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_45166.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_46648.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_46986.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_47070.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_47187.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_48435.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_48817.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_49138.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_49460.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_49519.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_49532.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_49829.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_50608.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_54640.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_87_61082.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_90_15727.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_90_20155.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_90_30407.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_90_3525.txt 172: 172: testChEMBfopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: fopen testChEMBL_Txt(): No such file or directory 172: L_Txt() chembl_II_sets/Target_no_93_12377.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_93_1308.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_93_34759.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_93_35447.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_93_42214.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_93_45877.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_93_47082.txt 172: 172: testChEMBL_Txt() chembl_II_sets/Target_no_93_57082.txt 172: 172: testFileSDF_RandomSet(): benchmark/chembl13-10000-random-pairs.sdf 172: ERROR: RDKit could not load input file 172: 172: testFileSDF_RandomSet(): benchmark/chembl13_pairs.smi 172: ERROR: RDKit could not load input file 172: 172: testFileSDF_RandomSet(): benchmark/chembl13_knearest_2.smi 172: ERROR: RDKit could not load input file 172: 172: testFileSDF_RandomSet(): benchmark/chembl13_knearest_10.smi 172: ERROR: RDKit could not load input file 172: 172: testFileSDF_RandomSet(): benchmark/chembl13_knearest_100.smi 172: ERROR: RDKit could not load input file 172: 172: testFileSDF_RandomSet(): benchmark/chembl13_threshold_80.smi 172: ERROR: RDKit could not load input file 172: 172: testFileSDF_RandomSet(): benchmark/chembl13_threshold_90.smi 172: ERROR: RDKit could not load input file 167/254 Test #172: FMCStest ............................... Passed 0.02 sec test 173 Start 173: molHashCatchTest 173: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash/molHashCatchTest 173: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash 173: Test timeout computed to be: 7200 173: Randomness seeded to: 1299799811 173: =============================================================================== 173: All tests passed (435 assertions in 18 test cases) 173: 168/254 Test #173: molHashCatchTest ....................... Passed 0.04 sec test 174 Start 174: pyMolHash 174: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolHash/Wrap/testMolHash.py" 174: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolHash/Wrap 174: Test timeout computed to be: 7200 169: MCS: [#6]-[#6]1-[#6]-[#6]-[#6]-[#6]-[#6]-1 7 atoms, 7 bonds 169: Time elapsed 0.000 seconds 169: 169: test32() 169: 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 169: Time elapsed 0.029 seconds 169: 169: test190() 169: 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 169: Time elapsed 0.004 seconds 169: 169: test3() 169: MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6]-[#6](=[#8])-[#7]-[#6]-[#6]-[#6]-[#6] 14 atoms, 14 bonds 169: Time elapsed 0.007 seconds 169: 169: testSimpleFast() 169: 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 169: Time elapsed 0.048 seconds 169: 169: testSimple() 169: MCS: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds 169: Time elapsed 0.041 seconds 169: MCS MatchFusedRings: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds 169: Time elapsed 0.051 seconds 169: MCS MatchFusedRingsStrict: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds 169: Time elapsed 0.049 seconds 169: 169: testSegFault() 169: MCS: [#6]1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@1 6 atoms, 6 bonds 169: Time elapsed 0.005 seconds 169: MCS MatchFusedRings: [#6]1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@1 6 atoms, 6 bonds 169: Time elapsed 0.006 seconds 169: 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 169: Time elapsed 0.007 seconds 169: 169: testThreshold() 169: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 169: Time elapsed 0.000 seconds 169: 169: testRing1() 169: 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 169: Time elapsed 0.147 seconds 169: 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 169: Time elapsed 0.138 seconds 169: 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 169: Time elapsed 0.157 seconds 169: 169: testAtomCompareIsotopes() 169: MCS: [0*]-[0*]-[13*] 3 atoms, 2 bonds 169: Time elapsed 0.000 seconds 169: 169: testAtomCompareAnyAtom() 169: MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#7,#8,#9,#17] 7 atoms, 7 bonds 169: Time elapsed 0.000 seconds 169: 169: testAtomCompareAnyAtom() 169: MCS: [#6]1-,:[#6]-,:[#6]-,:[#6]-,:[#6]-,:[#6]-,:1=,-[#6,#7,#8,#9,#17] 7 atoms, 7 bonds 169: Time elapsed 0.000 seconds 169: 169: testAtomCompareAnyAtom() 169: MCS: [#1]-[#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#8] 8 atoms, 8 bonds 169: Time elapsed 0.000 seconds 169: 169: testAtomCompareAnyAtom() 169: MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#8] 7 atoms, 7 bonds 169: Time elapsed 0.000 seconds 169: 169: testJnk1LigandsDistance() 169: 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 169: Time elapsed 0.004 seconds 169: 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 174: .... 174: ---------------------------------------------------------------------- 174: Ran 4 tests in 0.006s 174: 174: OK 169/254 Test #174: pyMolHash .............................. Passed 0.10 sec test 175 Start 175: testMMPA 175: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA/testMMPA 175: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA 175: Test timeout computed to be: 7200 169: Time elapsed 0.001 seconds 169: 169: test18() 169: 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]1 169: 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 169: Time elapsed 0.003 seconds 169: 169: test504() 169: 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]1 169: 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 169: Time elapsed 0.042 seconds 169: MCS: [#6]-[#6]1-[#6]-[#6]-[#6]-[#6]-[#6]-1 7 atoms, 7 bonds 169: Time elapsed 0.001 seconds 169: 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 169: Time elapsed 0.011 seconds 169: Query Cc1c(F)c(N2CCNC(C)C2)cc2c1c(=O)c(C(=O)O)cn2C1CC1 26(26) atoms, 29(28) bonds 169: 1 Seeds:1 MCS 25 atoms, 28 bonds for 0.0006 seconds. bond[0]=6 169: STATISTICS: 169: Total Growing Steps = 1, MCS found on 1 step, for 0.0006 seconds 169: Initial Seeds = 1, Mismatched 0 169: Inspected Seeds = 2 169: Rejected by BestSize = 0 169: IndividualBondExcluded = 0 169: MatchCheck Seeds = 2 169: MatchCalls = 2 169: MatchFound = 1 169: fastMatchCalls = 1 169: fastMatchFound = 0 169: slowMatchCalls = 2 169: slowMatchFound = 1 169: DupCacheFound = 0 0 matched, 0 mismatched 169: HashCache size = 1 keys 169: HashCache size = 1 entries 169: FindHashInCache = 2 169: HashFoundInCache= 0 169: ExactMatchCalls = 0 169: ExactMatchFound = 0 169: Time elapsed 0.001 seconds 169: query=OCCl SubstructMatch(useChirality=false) res =1 size=3 169: query=OCCl SubstructMatch(useChirality=true ) res =1 size=3 169: test target = O[C@H](F)CCl query = C(F)C useChirality = 0 169: res sub = 1 size=3 169: MCS: [#6](-[#9])-[#6] 3 atoms, 2 bonds 169: test target = O[C@H](F)CCl query = C(F)C useChirality = 1 175: 175: TEST mol: Case1 Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1 Case1 175: Time elapsed 0.002239 seconds 175: 1: res= NULL,C[*:1].C[C:7](C(=O)Nc1ccccc1[*:1])[NH+]1CCCC1 175: 1: NOREF. Reference data NOT LISTED in test case. 169: res sub = 1 size=3 169: MCS: [#6](-[#9])-[#6] 3 atoms, 2 bonds 169: test target = CC[C@H](F)Cl query = CCC useChirality = 0 169: res sub = 1 size=3 169: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 169: test target = CC[C@H](F)Cl query = CCC useChirality = 1 169: res sub = 1 size=3 169: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 169: test target = CCC(F)Cl query = CC useChirality = 0 169: res sub = 1 size=2 169: MCS: [#6]-[#6] 2 atoms, 1 bonds 169: test target = CCC(F)Cl query = CC useChirality = 1 169: res sub = 1 size=2 169: MCS: [#6]-[#6] 2 atoms, 1 bonds 169: test target = C[C@H](F)CCl query = C[C@H](F)C useChirality = 0 169: res sub = 1 size=4 169: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = C[C@H](F)CCl query = C[C@H](F)C useChirality = 1 169: res sub = 1 size=4 169: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = C[C@H](F)CCl query = C[C@@H](F)C useChirality = 0 169: res sub = 1 size=4 169: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = C[C@H](F)CCl query = C[C@@H](F)C useChirality = 1 169: res sub = 1 size=4 169: MCS: [#6]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = O[C@H](F)CCl query = CC(F)C useChirality = 0 169: res sub = 0 size=0 169: MCS: [#6]-[#6]-[#9] 3 atoms, 2 bonds 169: test target = O[C@H](F)CCl query = CC(F)C useChirality = 1 169: res sub = 0 size=0 169: MCS: [#6]-[#6]-[#9] 3 atoms, 2 bonds 169: test target = O[C@H](F)CCl query = OC(F)C useChirality = 0 169: res sub = 1 size=4 169: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = O[C@H](F)CCl query = OC(F)C useChirality = 1 169: res sub = 1 size=4 169: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = O[C@H](F)CCl query = O[C@H](F)C useChirality = 0 169: res sub = 1 size=4 169: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = O[C@H](F)CCl query = O[C@H](F)C useChirality = 1 169: res sub = 1 size=4 169: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = O[C@H](F)CCl query = O[C@@H](F)C useChirality = 0 169: res sub = 1 size=4 169: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = O[C@H](F)CCl query = O[C@@H](F)C useChirality = 1 169: res sub = 0 size=0 169: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 169: test target = OC(F)CCl query = OC(F)C useChirality = 0 169: res sub = 1 size=4 169: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = OC(F)CCl query = OC(F)C useChirality = 1 169: res sub = 1 size=4 169: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = OC(F)CCl query = O[C@H](F)C useChirality = 0 169: res sub = 1 size=4 169: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = OC(F)CCl query = O[C@H](F)C useChirality = 1 169: res sub = 0 size=0 169: MCS: [#9] 1 atoms, 0 bonds 169: test target = OC(F)CCl query = O[C@@H](F)C useChirality = 0 169: res sub = 1 size=4 169: MCS: [#8]-[#6](-[#9])-[#6] 4 atoms, 3 bonds 169: test target = OC(F)CCl query = O[C@@H](F)C useChirality = 1 169: res sub = 0 size=0 169: MCS: [#9] 1 atoms, 0 bonds 169: test target = O[C@H](F)CCl query = O[C@H]C useChirality = 0 169: res sub = 1 size=3 169: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 169: test target = O[C@H](F)CCl query = O[C@H]C useChirality = 1 169: res sub = 1 size=3 169: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 169: test target = O[C@H](F)CCl query = O[C@@H]C useChirality = 0 169: res sub = 1 size=3 169: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 169: test target = O[C@H](F)CCl query = O[C@@H]C useChirality = 1 169: res sub = 1 size=3 169: MCS: [#8]-[#6]-[#6] 3 atoms, 2 bonds 169: 169: 0. <<<<<<<<< actual MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds >>>>>>> 169: test target = CC[C@H](F)Cl query = CC[C@H] useChirality = 0 169: res sub = 1 size=3 169: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 169: test target = CC[C@H](F)Cl query = CC[C@H] useChirality = 1 169: res sub = 1 size=3 169: MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds 169: done 175: 2: res= c1ccc([*:2])c([*:1])c1,C[*:1].C[C:7](C(=O)N[*:2])[NH+]1CCCC1 175: 2: NOREF. Reference data NOT LISTED in test case. 175: 3: res= O=C(Nc1ccccc1[*:1])[*:2],C[*:1].C[C:7]([NH+]1CCCC1)[*:2] 175: 3: NOREF. Reference data NOT LISTED in test case. 175: 4: res= O=C(Nc1ccccc1[*:1])[C:7]([NH+]1CCCC1)[*:2],C[*:1].C[*:2] 175: 4: NOREF. Reference data NOT LISTED in test case. 175: 5: res= O=C(Nc1ccccc1[*:1])[C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].C[*:2] 175: 5: NOREF. Reference data NOT LISTED in test case. 175: 6: res= C[C:7](C(=O)Nc1ccccc1[*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 175: 6: NOREF. Reference data NOT LISTED in test case. 175: 7: res= NULL,C[C:7](C(=O)N[*:1])[NH+]1CCCC1.Cc1ccccc1[*:1] 175: 7: NOREF. Reference data NOT LISTED in test case. 175: 8: res= O=C(N[*:2])[*:1],C[C:7]([NH+]1CCCC1)[*:1].Cc1ccccc1[*:2] 175: 8: NOREF. Reference data NOT LISTED in test case. 175: 9: res= O=C(N[*:2])[C:7]([NH+]1CCCC1)[*:1],C[*:1].Cc1ccccc1[*:2] 175: 9: NOREF. Reference data NOT LISTED in test case. 175: 10: res= O=C(N[*:3])[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1].Cc1ccccc1[*:3] 175: 10: NOREF. Reference data NOT LISTED in test case. 175: 11: res= C[C:7](C(=O)N[*:2])[*:1],C1CC[NH+]([*:1])C1.Cc1ccccc1[*:2] 175: 11: NOREF. Reference data NOT LISTED in test case. 175: 12: res= NULL,C[C:7]([NH+]1CCCC1)[*:1].Cc1ccccc1NC(=O)[*:1] 175: 12: NOREF. Reference data NOT LISTED in test case. 175: 13: res= C1CC[NH+]([C:7]([*:1])[*:2])C1,C[*:1].Cc1ccccc1NC(=O)[*:2] 175: 13: NOREF. Reference data NOT LISTED in test case. 175: 14: res= [*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].Cc1ccccc1NC(=O)[*:2] 175: 14: NOREF. Reference data NOT LISTED in test case. 175: 15: res= C[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.Cc1ccccc1NC(=O)[*:1] 175: 15: NOREF. Reference data NOT LISTED in test case. 175: 16: res= NULL,C[*:1].Cc1ccccc1NC(=O)[C:7]([NH+]1CCCC1)[*:1] 175: 16: NOREF. Reference data NOT LISTED in test case. 175: 17: res= Cc1ccccc1NC(=O)[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 175: 17: NOREF. Reference data NOT LISTED in test case. 175: 18: res= NULL,C1CC[NH+]([*:1])C1.Cc1ccccc1NC(=O)[C:7](C)[*:1] 175: 18: NOREF. Reference data NOT LISTED in test case. 175: 175: --- UNMATCHED Reference RESULTS: --- 175: 1: Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1,Case1,[*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:2].Cc1ccccc1NC(=O)[*:1] 175: ----------------------------------- 175: Time elapsed 0.001937 seconds 175: 175: TEST 1 mol: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-] ZINC21984717 175: 1: NULL, C[*:1].O=C(NCCO)c1c([*:1])n([O-])c2ccccc2[n+]1=O 175: 1: PASSED. matchedRefRes = 4 175: 2: O=[n+]1c([*:2])c([*:1])n([O-])c2ccccc21, C[*:1].O=C(NCCO)[*:2] 175: 2: PASSED. matchedRefRes = 1 175: 3: O=C(N[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O, C[*:1].OCC[*:2] 175: 3: PASSED. matchedRefRes = 6 175: 4: O=C(NC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O, C[*:1].OC[*:2] 175: 4: PASSED. matchedRefRes = 13 175: 5: O=C(NCC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O, C[*:1].O[*:2] 175: 5: PASSED. matchedRefRes = 12 175: 6: NULL, Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O=C(NCCO)[*:1] 175: 6: PASSED. matchedRefRes = 10 175: 7: O=C(N[*:1])[*:2], Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 175: 7: NOREF. Reference data NOT LISTED in test case.O=C(N[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 175: 8: O=C(NC[*:1])[*:2], Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 175: 8: NOREF. Reference data NOT LISTED in test case.O=C(NC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 175: 9: O=C(NCC[*:1])[*:2], Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].O[*:1] 175: 9: NOREF. Reference data NOT LISTED in test case.O=C(NCC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].O[*:1] 175: 10: NULL, Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 175: 10: PASSED. matchedRefRes = 3 175: 11: C([*:1])[*:2], Cc1c(C(=O)N[*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 175: 11: NOREF. Reference data NOT LISTED in test case.C([*:1])[*:2],Cc1c(C(=O)N[*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 175: 12: C(C[*:2])[*:1], Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 175: 12: PASSED. matchedRefRes = 8 175: 13: NULL, Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:1] 175: 13: PASSED. matchedRefRes = 9 175: 14: C([*:1])[*:2], Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 175: 14: PASSED. matchedRefRes = 11 175: 15: NULL, Cc1c(C(=O)NCC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:1] 175: 15: PASSED. matchedRefRes = 2 175: 175: --- UNMATCHED Reference RESULTS: --- 175: 5: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,C([*:1])[*:2],Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 175: 7: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(N[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:2] 175: 14: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NCC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 175: 15: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 175: ----------------------------------- 175: 175: TEST mol: ZINC21984717 Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-] ZINC21984717 175: Time elapsed 0.001952 seconds 175: 1: res= NULL,C[*:1].O=C(NCCO)c1c([*:1])n([O-])c2ccccc2[n+]1=O 175: 1: PASSED. matchedRefRes = 4 175: 2: res= O=[n+]1c([*:2])c([*:1])n([O-])c2ccccc21,C[*:1].O=C(NCCO)[*:2] 175: 2: PASSED. matchedRefRes = 1 175: 3: res= O=C(N[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O,C[*:1].OCC[*:2] 175: 3: PASSED. matchedRefRes = 6 175: 4: res= O=C(NC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O,C[*:1].OC[*:2] 175: 4: PASSED. matchedRefRes = 13 175: 5: res= O=C(NCC[*:2])c1c([*:1])n([O-])c2ccccc2[n+]1=O,C[*:1].O[*:2] 175: 5: PASSED. matchedRefRes = 12 175: 6: res= NULL,Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O=C(NCCO)[*:1] 175: 6: PASSED. matchedRefRes = 10 175: 7: res= O=C(N[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 175: 7: NOREF. Reference data NOT LISTED in test case. 175: 8: res= O=C(NC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 175: 8: NOREF. Reference data NOT LISTED in test case. 175: 9: res= O=C(NCC[*:1])[*:2],Cc1c([*:2])[n+](=O)c2ccccc2n1[O-].O[*:1] 175: 9: NOREF. Reference data NOT LISTED in test case. 175: 10: res= NULL,Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:1] 175: 10: PASSED. matchedRefRes = 3 175: 11: res= C([*:1])[*:2],Cc1c(C(=O)N[*:2])[n+](=O)c2ccccc2n1[O-].OC[*:1] 175: 11: NOREF. Reference data NOT LISTED in test case. 175: 12: res= C(C[*:2])[*:1],Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 175: 12: PASSED. matchedRefRes = 8 175: 13: res= NULL,Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:1] 175: 13: PASSED. matchedRefRes = 9 175: 14: res= C([*:1])[*:2],Cc1c(C(=O)NC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 175: 14: PASSED. matchedRefRes = 11 175: 15: res= NULL,Cc1c(C(=O)NCC[*:1])[n+](=O)c2ccccc2n1[O-].O[*:1] 175: 15: PASSED. matchedRefRes = 2 175: 175: --- UNMATCHED Reference RESULTS: --- 175: 5: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,C([*:1])[*:2],Cc1c(C(=O)N[*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 175: 7: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(N[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OCC[*:2] 175: 14: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NCC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].O[*:2] 175: 15: Cc1c(C(=O)NCCO)[n+](=O)c2ccccc2n1[O-],ZINC21984717,O=C(NC[*:2])[*:1],Cc1c([*:1])[n+](=O)c2ccccc2n1[O-].OC[*:2] 175: ----------------------------------- 175: 175: TEST mol: Case1-SIMPLE CC(N1CC1)C(=O) Case1-SIMPLE 175: Time elapsed 0.000499 seconds 175: 1: res= NULL,C[*:1].O=CC(N1CC1)[*:1] 175: 1: PASSED. matchedRefRes = 2 175: 2: res= O=CC([*:1])[*:2],C1CN1[*:2].C[*:1] 175: 2: PASSED. matchedRefRes = 3 175: 3: res= C([*:1])([*:2])[*:3],C1CN1[*:3].C[*:1].O=C[*:2] 175: 3: NOREF. Reference data NOT LISTED in test case. 175: 4: res= C1CN1C([*:1])[*:2],C[*:1].O=C[*:2] 175: 4: PASSED. matchedRefRes = 4 175: 5: res= NULL,C1CN1[*:1].CC(C=O)[*:1] 175: 5: PASSED. matchedRefRes = 5 175: 6: res= CC([*:1])[*:2],C1CN1[*:2].O=C[*:1] 175: 6: NOREF. Reference data NOT LISTED in test case. 175: 7: res= NULL,CC(N1CC1)[*:1].O=C[*:1] 175: 7: PASSED. matchedRefRes = 7 175: 175: --- UNMATCHED Reference RESULTS: --- 175: 1: CC(N1CC1)C(=O),Case1-SIMPLE,C([*:1])([*:2])[*:3],C1CN1[*:2].C[*:1].O=C[*:3] 175: 6: CC(N1CC1)C(=O),Case1-SIMPLE,CC([*:1])[*:2],C1CN1[*:1].O=C[*:2] 175: ----------------------------------- 175: 175: TEST mol: Case1 Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1 Case1 175: Time elapsed 0.002217 seconds 175: 1: res= NULL,C[*:1].C[C:7](C(=O)Nc1ccccc1[*:1])[NH+]1CCCC1 175: 1: NOREF. Reference data NOT LISTED in test case. 175: 2: res= c1ccc([*:2])c([*:1])c1,C[*:1].C[C:7](C(=O)N[*:2])[NH+]1CCCC1 175: 2: NOREF. Reference data NOT LISTED in test case. 175: 3: res= O=C(Nc1ccccc1[*:1])[*:2],C[*:1].C[C:7]([NH+]1CCCC1)[*:2] 175: 3: NOREF. Reference data NOT LISTED in test case. 175: 4: res= O=C(Nc1ccccc1[*:1])[C:7]([NH+]1CCCC1)[*:2],C[*:1].C[*:2] 175: 4: NOREF. Reference data NOT LISTED in test case. 175: 5: res= O=C(Nc1ccccc1[*:1])[C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].C[*:2] 175: 5: NOREF. Reference data NOT LISTED in test case. 175: 6: res= C[C:7](C(=O)Nc1ccccc1[*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 175: 6: NOREF. Reference data NOT LISTED in test case. 175: 7: res= NULL,C[C:7](C(=O)N[*:1])[NH+]1CCCC1.Cc1ccccc1[*:1] 175: 7: NOREF. Reference data NOT LISTED in test case. 175: 8: res= O=C(N[*:2])[*:1],C[C:7]([NH+]1CCCC1)[*:1].Cc1ccccc1[*:2] 175: 8: NOREF. Reference data NOT LISTED in test case. 175: 9: res= O=C(N[*:2])[C:7]([NH+]1CCCC1)[*:1],C[*:1].Cc1ccccc1[*:2] 175: 9: NOREF. Reference data NOT LISTED in test case. 175: 10: res= O=C(N[*:3])[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1].Cc1ccccc1[*:3] 175: 10: NOREF. Reference data NOT LISTED in test case. 175: 11: res= C[C:7](C(=O)N[*:2])[*:1],C1CC[NH+]([*:1])C1.Cc1ccccc1[*:2] 175: 11: NOREF. Reference data NOT LISTED in test case. 175: 12: res= NULL,C[C:7]([NH+]1CCCC1)[*:1].Cc1ccccc1NC(=O)[*:1] 175: 12: NOREF. Reference data NOT LISTED in test case. 175: 13: res= C1CC[NH+]([C:7]([*:1])[*:2])C1,C[*:1].Cc1ccccc1NC(=O)[*:2] 175: 13: NOREF. Reference data NOT LISTED in test case. 175: 14: res= [*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:1].Cc1ccccc1NC(=O)[*:2] 175: 14: NOREF. Reference data NOT LISTED in test case. 175: 15: res= C[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.Cc1ccccc1NC(=O)[*:1] 175: 15: NOREF. Reference data NOT LISTED in test case. 175: 16: res= NULL,C[*:1].Cc1ccccc1NC(=O)[C:7]([NH+]1CCCC1)[*:1] 175: 16: NOREF. Reference data NOT LISTED in test case. 175: 17: res= Cc1ccccc1NC(=O)[C:7]([*:1])[*:2],C1CC[NH+]([*:2])C1.C[*:1] 175: 17: NOREF. Reference data NOT LISTED in test case. 175: 18: res= NULL,C1CC[NH+]([*:1])C1.Cc1ccccc1NC(=O)[C:7](C)[*:1] 175: 18: NOREF. Reference data NOT LISTED in test case. 175: 175: --- UNMATCHED Reference RESULTS: --- 175: 1: Cc1ccccc1NC(=O)[C:7](C)[NH+]1CCCC1,Case1,[*:1][C:7]([*:2])[*:3],C1CC[NH+]([*:3])C1.C[*:2].Cc1ccccc1NC(=O)[*:1] 175: ----------------------------------- 175: 175: TEST mol: Case2 O=C(OCc1ccccc1)C(O)c1ccccc1 Case2 175: Time elapsed 0.002338 seconds 175: 1: res= NULL,O=C(O[*:1])C(O)c1ccccc1.c1ccc(C[*:1])cc1 175: 1: NOREF. Reference data NOT LISTED in test case. 175: 2: res= C([*:1])[*:2],O=C(O[*:1])C(O)c1ccccc1.c1ccc([*:2])cc1 175: 2: NOREF. Reference data NOT LISTED in test case. 175: 3: res= O=C(O[*:2])[*:1],OC(c1ccccc1)[*:1].c1ccc(C[*:2])cc1 175: 3: NOREF. Reference data NOT LISTED in test case. 175: 4: res= O=C(O[*:1])C(c1ccccc1)[*:2],O[*:2].c1ccc(C[*:1])cc1 175: 4: NOREF. Reference data NOT LISTED in test case. 175: 5: res= O=C(O[*:1])C([*:2])[*:3],O[*:2].c1ccc(C[*:1])cc1.c1ccc([*:3])cc1 175: 5: NOREF. Reference data NOT LISTED in test case. 175: 6: res= O=C(O[*:1])C(O)[*:2],c1ccc(C[*:1])cc1.c1ccc([*:2])cc1 175: 6: NOREF. Reference data NOT LISTED in test case. 175: 7: res= NULL,O=C(OC[*:1])C(O)c1ccccc1.c1ccc([*:1])cc1 175: 7: NOREF. Reference data NOT LISTED in test case. 175: 8: res= O=C(OC[*:2])[*:1],OC(c1ccccc1)[*:1].c1ccc([*:2])cc1 175: 8: NOREF. Reference data NOT LISTED in test case. 175: 9: res= O=C(OC[*:2])C(c1ccccc1)[*:1],O[*:1].c1ccc([*:2])cc1 175: 9: NOREF. Reference data NOT LISTED in test case. 175: 10: res= O=C(OC[*:2])C([*:1])[*:3],O[*:1].c1ccc([*:2])cc1.c1ccc([*:3])cc1 175: 10: NOREF. Reference data NOT LISTED in test case. 175: 11: res= O=C(OC[*:1])C(O)[*:2],c1ccc([*:1])cc1.c1ccc([*:2])cc1 175: 11: NOREF. Reference data NOT LISTED in test case. 175: 12: res= NULL,O=C(OCc1ccccc1)[*:1].OC(c1ccccc1)[*:1] 175: 12: NOREF. Reference data NOT LISTED in test case. 175: 13: res= c1ccc(C([*:1])[*:2])cc1,O=C(OCc1ccccc1)[*:1].O[*:2] 175: 13: NOREF. Reference data NOT LISTED in test case. 175: 14: res= C([*:1])([*:2])[*:3],O=C(OCc1ccccc1)[*:1].O[*:2].c1ccc([*:3])cc1 175: 14: PASSED. matchedRefRes = 1 175: 15: res= OC([*:1])[*:2],O=C(OCc1ccccc1)[*:1].c1ccc([*:2])cc1 175: 15: NOREF. Reference data NOT LISTED in test case. 175: 16: res= NULL,O=C(OCc1ccccc1)C(c1ccccc1)[*:1].O[*:1] 175: 16: NOREF. Reference data NOT LISTED in test case. 175: 17: res= O=C(OCc1ccccc1)C([*:1])[*:2],O[*:1].c1ccc([*:2])cc1 175: 17: NOREF. Reference data NOT LISTED in test case. 175: 18: res= NULL,O=C(OCc1ccccc1)C(O)[*:1].c1ccc([*:1])cc1 175: 18: NOREF. Reference data NOT LISTED in test case. 175: 175: --- ALL PASSED --- 175: ----------------------------------- 175: 5 TEST CASES FAILED 170/254 Test #175: testMMPA ............................... Passed 0.06 sec test 176 Start 176: pyMMPA 176: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/MMPA/Wrap/testMMPA.py" 176: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MMPA/Wrap 176: Test timeout computed to be: 7200 163: reference time: 10276ms 163: parallel loop 169: [09:22:16] The provided InitialSeed is not an MCS and will be ignored 176: ......... 176: ---------------------------------------------------------------------- 176: Ran 9 tests in 0.647s 176: 176: OK 171/254 Test #176: pyMMPA ................................. Passed 0.75 sec test 177 Start 177: testRascalMCES 177: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES/testRascalMCES 177: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES 177: Test timeout computed to be: 7200 171: ........................................[09:22:17] The provided InitialSeed is not an MCS and will be ignored 171: [09:22:17] The provided InitialSeed is not an MCS and will be ignored 171: [09:22:17] The provided InitialSeed is not an MCS and will be ignored 171: .[09:22:17] The provided InitialSeed is not an MCS and will be ignored 171: [09:22:17] The provided InitialSeed is not an MCS and will be ignored 171: [09:22:17] The provided InitialSeed is not an MCS and will be ignored 171: .[09:22:17] The provided InitialSeed is not an MCS and will be ignored 171: [09:22:17] The provided InitialSeed is not an MCS and will be ignored 171: [09:22:17] The provided InitialSeed is not an MCS and will be ignored 171: .[09:22:17] The provided InitialSeed is not an MCS and will be ignored 171: [09:22:17] The provided InitialSeed is not an MCS and will be ignored 171: [09:22:17] The provided InitialSeed is not an MCS and will be ignored 171: ................. 171: ---------------------------------------------------------------------- 171: Ran 60 tests in 1.579s 171: 171: OK 172/254 Test #171: pyFMCS ................................. Passed 1.70 sec test 178 Start 178: testRascalCluster 178: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES/testRascalCluster 178: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES 178: Test timeout computed to be: 7200 178: Randomness seeded to: 2948429769 178: /build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/data/chembl_1907596.smi 163: parallel time: 4207ms 163: =============================================================================== 163: All tests passed (262 assertions in 17 test cases) 163: 173/254 Test #163: testGaussianShape ...................... Passed 14.55 sec test 179 Start 179: pyRascalMCES 179: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/RascalMCES/Wrap/testRascalMCES.py" 179: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RascalMCES/Wrap 179: Test timeout computed to be: 7200 179: ..........[09:22:21] Too many matching bond pairs (1032) so can't continue. 151: [09:22:22] UFFTYPER: Unrecognized atom type: S_6+6 (0) 151: [09:22:22] UFFTYPER: Warning: hybridization set to SP3 for atom 0 151: [09:22:22] UFFTYPER: Unrecognized charge state for atom: 0 179: .... 179: ---------------------------------------------------------------------- 179: Ran 14 tests in 1.467s 179: 179: OK 174/254 Test #179: pyRascalMCES ........................... Passed 1.85 sec test 180 Start 180: testSynthonSpaceSubstructureSearch 180: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 180: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch 180: Test timeout computed to be: 7200 177: Randomness seeded to: 307433606 177: =============================================================================== 177: All tests passed (1588 assertions in 35 test cases) 177: 175/254 Test #177: testRascalMCES ......................... Passed 6.00 sec test 181 Start 181: testSynthonSpaceFingerprintSearch 181: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceFingerprintSearch 181: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch 181: Test timeout computed to be: 7200 181: Randomness seeded to: 2390967434 181: [09:22:23] Building the fingerprints may take some time. 181: [09:22:23] Building the fingerprints may take some time. 180: Randomness seeded to: 216005388 180: [09:22:23] Writing the enumerated file may take quite some time and result in a large file. 181: [09:22:23] Building the fingerprints may take some time. 169: MCS MatchStereo false : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 169: MCS MatchStereo true : [#6]-[#6]-[#6] 3 atoms, 2 bonds 169: MCS MatchStereo false : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 169: MCS MatchStereo true : [#6]-[#6]-[#6] 3 atoms, 2 bonds 169: MCS MatchStereo false : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 169: MCS MatchStereo true : [#6]-[#6]-[#6]=[#6]-[#6]-[#6] 6 atoms, 5 bonds 169: TOTAL Time elapsed 8.68 seconds 176/254 Test #169: testFMCS ............................... Passed 8.71 sec test 182 Start 182: testSynthonSpaceRascalSearch 182: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceRascalSearch 182: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch 182: Test timeout computed to be: 7200 180: [09:22:24] Building the fingerprints may take some time. 181: [09:22:25] Building the fingerprints may take some time. 150: [09:22:25] done 182: Randomness seeded to: 855572382 182: =============================================================================== 182: All tests passed (18 assertions in 1 test case) 182: 177/254 Test #182: testSynthonSpaceRascalSearch ........... Passed 1.00 sec test 183 Start 183: pySynthonSpaceSearch 183: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/SynthonSpaceSearch/Wrap/testSynthonSpaceSearch.py" 183: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/Wrap 183: Test timeout computed to be: 7200 183: [09:22:25] Complex queries can be slow. 183: [09:22:26] Complex queries can be slow. 183: .[09:22:26] Writing the enumerated file may take quite some time and result in a large file. 183: .[09:22:26] Complex queries can be slow. 183: [09:22:26] Complex queries can be slow. 150: [09:22:25] --------------------------------- 150: [09:22:25] test github issue 256: handling of zero-atom molecules 150: 150: [09:22:25] --------------------------------- 150: [09:22:25] test embedder callback function 150: [09:22:25] --------------------------------- 150: [09:22:25] test multi-threaded multi-conf embedding 150: 150: [09:22:27] --------------------------------- 150: [09:22:27] test github issue 563: Incorrect ring stereochemistry after embedding 150: 150: CNC[C@H]1CC[C@H](C[NH3+])CC1 180: [09:22:28] 180: 180: **** 180: Invariant Violation 180: molzip: bond info not properly setup for bgn atom with label:1 180: Violation occurred on line 563 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 180: Failed Expression: bond.a 180: ---------- 180: Stacktrace: 180: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 180: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 180: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 180: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 180: 4# RDKit::molzip(RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 180: 5# RDKit::SynthonSpaceSearch::SynthonSet::makeSynthonSearchMols() in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 180: 6# RDKit::SynthonSpaceSearch::SynthonSpace::readStream(std::istream&, bool&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 180: 7# RDKit::SynthonSpaceSearch::SynthonSpace::readTextFile(std::__cxx11::basic_string, std::allocator > const&, bool&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 180: 8# 0x000000000003EDA3 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 180: 9# 0x000000000008E5CC in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 180: 10# 0x000000000008FBC2 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 180: 11# 0x000000000009002A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 180: 12# 0x00000000000625D1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 180: 13# 0x00000000000628CC in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 180: 14# 0x000000000003DE1E in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 180: 15# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 180: 16# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 180: 17# 0x000000000003DE61 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SynthonSpaceSearch/testSynthonSpaceSubstructureSearch 180: ---------- 180: **** 180: 180: [09:22:28] Error:: in reaction amide-1 :: building molecule from synthons : 1-1 (c1cc[1*]ccc1C(=O)[1*]) and 2-1 ([1*]N1CCCC1) 180: molzip: bond info not properly setup for bgn atom with label:1 180: [09:22:28] Explicit valence for atom # 4 C, 5, is greater than permitted 180: [09:22:28] Error:: in reaction error-1 :: building molecule from synthons : 1-1 (C(=[2*])=CC=[1*]) and 2-1 (ClC([2*])=CN=[1*]) 180: Explicit valence for atom # 4 C, 5, is greater than permitted 180: [09:22:28] Complex queries can be slow. 180: [09:22:28] Complex queries can be slow. 180: [09:22:28] Complex queries can be slow. 180: [09:22:28] Complex queries can be slow. 180: [09:22:28] Complex queries can be slow. 180: [09:22:28] Complex queries can be slow. 150: [09:22:28] --------------------------------- 150: [09:22:28] test github issue 568: Incorrect stereochemistry after embedding 150: 150: C1=NC[C@]2(CN3CC[C@@H]2C3)O1 180: [09:22:28] Complex queries can be slow. 150: O=C(O)[C@@H]1[C@H](C(=O)O)[C@H]2CC[C@@H]1O2 150: O=C(CCc1ccccc1)OC[C@H]1C[C@@H]2O[C@H]1[C@H]1C(=O)OC(=O)[C@H]12 180: [09:22:28] Complex queries can be slow. 180: [09:22:29] Complex queries can be slow. 180: [09:22:29] Complex queries can be slow. 150: Cn1cc(C2=NC[C@]3(CN4CC[C@@H]3C4)O2)c2ccccc21 180: [09:22:29] Complex queries can be slow. 150: Nc1ncnc2c1ncn2[C@@H]1C=C(CO)[C@@H](O)[C@H]1O 150: CO[C@H]1[C@@H](N)[C@@H](O)[C@@H](O)[C@H]1O 150: CO[C@@H]1[C@@H](N)[C@@H](O)[C@@H](O)[C@H]1O 150: CCS[C@@H]1[C@@H](N)[C@@H](O)[C@@H](O)[C@H]1O 150: CCCCC[C@H](O)/C=C/[C@@]1(F)[C@H](O)C[C@H](O)[C@@H]1C/C=C\CCCC(=O)OC 150: CCCCC[C@@H](O)/C=C/[C@@]1(F)[C@H](C/C=C\CCCC(=O)OC)[C@H](O)C[C@@H]1O 150: CNC(=O)Oc1cccc2c1OC[C@@H]1CCN(C)[C@H]21 150: CNC(=O)Oc1ccc2c(c1)[C@@H]1[C@@H](CCN1C)CO2 150: CN1CC[C@H]2COc3c(O)cccc3[C@H]21 150: CC(=O)C[C@@]12CCC[C@H]1[C@@H]1CCC3=CC(=O)CC[C@@H]3[C@H]1CC2 150: O=C(O)[C@@H]1C[C@H]2C[C@@H](CCc3nn[nH]n3)CC[C@H]2CN1 181: =============================================================================== 181: All tests passed (56 assertions in 4 test cases) 181: 178/254 Test #181: testSynthonSpaceFingerprintSearch ...... Passed 10.17 sec test 184 Start 184: testEnumerateStereoisomers 184: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/testEnumerateStereoisomers 184: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers 184: Test timeout computed to be: 7200 150: COc1ccc2c(c1)OC[C@@H](N1CCC(O)(c3ccc(F)cc3)CC1)[C@H]2O 150: Oc1ccc2c(c1)OC[C@@H](N1CCC(Cc3ccccc3)CC1)[C@H]2O 150: Oc1ccc2c(c1)OC[C@H](N1CCC(O)(c3ccccc3)CC1)[C@@H]2O 150: CC(=O)c1ccc2c(c1)[C@@]13CCCC[C@H]1[C@@H](C2)N(CC1CC1)CC3 150: CC(=O)O[C@@H]1CC[C@@H]2CN3CCc4cc5c(cc4[C@@H]3C[C@@H]2C1)OCO5 180: [09:22:35] Complex queries can be slow. 180: [09:22:35] Complex queries can be slow. 180: [09:22:36] Complex queries can be slow. 180: [09:22:36] Complex queries can be slow. 150: COc1cc2c(cc1OC)[C@@H]1C[C@@H]3C[C@H](O)CC[C@@H]3CN1CC2 180: [09:22:36] Complex queries can be slow. 180: [09:22:36] Complex queries can be slow. 180: [09:22:36] Complex queries can be slow. 180: [09:22:36] Complex queries can be slow. 150: N#C[C@@H]1C[C@@H]2CN3CCc4cc5c(cc4[C@@H]3C[C@@H]2C[C@@H]1O)OCO5 180: [09:22:36] Complex queries can be slow. 180: [09:22:37] Complex queries can be slow. 150: COC(=O)[C@@H]1C[C@](C)(C(=O)O)NC(=O)N1 180: [09:22:37] Complex queries can be slow. 150: CC(=O)OC1=C(Sc2ccccc2)C[C@H]2Cc3cc4cccc(O)c4c(O)c3C(=O)[C@H]2C1 180: [09:22:37] Complex queries can be slow. 180: [09:22:37] Complex queries can be slow. 180: [09:22:37] Complex queries can be slow. 150: Nc1ncnc2c1ncn2[C@@H]1C[C@H](CO)[C@@H](O)C1 180: [09:22:37] Complex queries can be slow. 150: C[C@H](C(N)=O)N1CC[C@@]23CCCC[C@@H]2[C@@H]1Cc1ccc(OCc2cccc(F)c2)cc13 180: [09:22:38] Complex queries can be slow. 180: [09:22:38] Complex queries can be slow. 180: [09:22:38] Complex queries can be slow. 180: [09:22:38] Complex queries can be slow. 180: [09:22:38] Complex queries can be slow. 180: [09:22:38] Complex queries can be slow. 180: [09:22:38] Complex queries can be slow. 150: CN1C(=O)CC[C@@]2(C)C1=CCc1cc(Cl)ccc12 180: [09:22:39] Complex queries can be slow. 150: Cc1nc(COc2ccc3c(c2)[C@@H](O)[C@@H](Cc2cccnc2)CO3)ccc1[N+](=O)[O-] 180: [09:22:40] Complex queries can be slow. 180: =============================================================================== 180: All tests passed (168 assertions in 24 test cases) 180: 179/254 Test #180: testSynthonSpaceSubstructureSearch ..... Passed 17.78 sec test 185 Start 185: pyNewEnumerateStereoisomers 185: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/EnumerateStereoisomers/Wrap/testEnumerateStereoisomers.py" 185: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/EnumerateStereoisomers/Wrap 185: Test timeout computed to be: 7200 185: ... 185: ---------------------------------------------------------------------- 185: Ran 3 tests in 0.256s 185: 185: OK 180/254 Test #185: pyNewEnumerateStereoisomers ............ Passed 0.36 sec test 186 Start 186: testCIPLabeler 186: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler/testCIPLabeler 186: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler 186: Test timeout computed to be: 7200 186: Randomness seeded to: 2752041517 186: [09:22:41] non kekulizable aromatic bond being treated as bond order 1 186: [09:22:41] non kekulizable aromatic bond being treated as bond order 1 186: [09:22:41] non kekulizable aromatic bond being treated as bond order 1 186: [09:22:41] non kekulizable aromatic bond being treated as bond order 1 186: [09:22:41] non kekulizable aromatic bond being treated as bond order 1 186: [09:22:41] non kekulizable aromatic bond being treated as bond order 1 151: [09:22:41] Interrupted, cancelling conformer generation 186: [09:22:41] Interrupted, cancelling CIP label calculation 186: [09:22:41] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 186: [09:22:41] Warning: conflicting stereochemistry - bond wedging contradiction - at atom 7 ignored 186: =============================================================================== 186: All tests passed (6618 assertions in 21 test cases) 186: 181/254 Test #186: testCIPLabeler ......................... Passed 0.26 sec test 187 Start 187: pyCIPLabelsWrapTest 187: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Wrap/pyCIPLabelWrapTest.py" 187: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap 187: Test timeout computed to be: 7200 187: .... 187: ---------------------------------------------------------------------- 187: Ran 4 tests in 0.008s 187: 187: OK 182/254 Test #187: pyCIPLabelsWrapTest .................... Passed 0.10 sec test 188 Start 188: pyCIPLabelsValidation 188: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/CIPLabeler/Wrap/pyCIPLabelsValidation.py" 188: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap 188: Test timeout computed to be: 7200 150: [09:22:44] Molecule does not have explicit Hs. Consider calling AddHs() 150: [09:22:39] --------------------------------- 150: [09:22:39] test github issue 696: Bad 1-4 bounds matrix elements in highly constrained system 150: [09:22:39] --------------------------------- 150: [09:22:39] More ChEMBL molecules failing bounds smoothing. 150: [09:22:39] --------------------------------- 150: [09:22:39] ugly conformations can be generated for highly constrained ring systems. 150: [09:22:39] --------------------------------- 150: [09:22:39] test embed parameters structure. 150: [09:22:39] --------------------------------- 150: [09:22:39] test github 1227: Hs being used in RMSD filtering. 150: [09:22:39] --------------------------------- 150: [09:22:39] Failure to embed larger aromatic rings. 150: [09:22:40] --------------------------------- 150: [09:22:40] Deterministic with large random seeds 150: [09:22:42] --------------------------------- 150: [09:22:42] Github #1990: seg fault after RemoveHs 150: [09:22:43] --------------------------------- 150: [09:22:43] Github #2246: Use coordMap when starting embedding from random coords 150: [09:22:43] --------------------------------- 150: [09:22:43] Providing a distance bounds matrix. 150: [09:22:43] --------------------------------- 150: [09:22:43] Disabling fragmentation. 150: [09:22:43] --------------------------------- 150: [09:22:43] Using symmetry in conformation pruning. 150: [09:22:44] --------------------------------- 150: [09:22:44] Force trans amides. 150: [09:22:44] --------------------------------- 150: [09:22:44] test missing Hs warning. 150: [09:22:44] --------------------------------- 150: [09:22:44] basic H bond support. 150: [09:22:44] ******************************************************* 183/254 Test #150: testDistGeomHelpers .................... Passed 43.84 sec test 189 Start 189: deprotectTest 189: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect/deprotectTest 189: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect 189: Test timeout computed to be: 7200 178: =============================================================================== 178: All tests passed (93 assertions in 5 test cases) 178: 189: Randomness seeded to: 63970203 189: =============================================================================== 189: All tests passed (111 assertions in 3 test cases) 189: 184/254 Test #189: deprotectTest .......................... Passed 0.04 sec test 190 Start 190: pyDeprotect 190: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Deprotect/Wrap/rough_test.py" 190: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Deprotect/Wrap 190: Test timeout computed to be: 7200 185/254 Test #178: testRascalCluster ...................... Passed 26.46 sec test 191 Start 191: testReducedGraphs 191: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs/testReducedGraphs 191: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs 191: Test timeout computed to be: 7200 191: 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, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, ] 191: 191: Size: 315 [ 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, 0.3, 1, 0.3, 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, 1, 0.3, 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, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, ] 191: 191: 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, 0.6, 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, 0.3, 1, 0.6, 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, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 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, ] 191: 191: Size: 315 [ 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, 0.3, 1, 0.6, 1, 0.3, 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, 1.3, 1.3, 0.6, 1, 0.6, 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, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 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, ] 191: 191: Size: 315 [ 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, 0.3, 1, 0.6, 1, 0.3, 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, 1.3, 1.3, 0.6, 1, 0.6, 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, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 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, ] 191: 191: 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, 0.3, 1, 0.3, 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, 0.3, 1, 0.3, 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, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 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, ] 191: 191: 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, 0.3, 1, 0.3, 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, 0.3, 1, 0.3, 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, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 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, ] 191: 191: 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, 0.3, 1, 0.3, 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, 0.3, 1, 0.3, 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, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 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, ] 191: 191: 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, 0.3, 1, 0.3, 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, 0.3, 1, 0.3, 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, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 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, ] 191: 186/254 Test #191: testReducedGraphs ...................... Passed 0.02 sec test 192 Start 192: pyReducedGraphs 192: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/ReducedGraphs/Wrap/testReducedGraphs.py" 192: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap 192: Test timeout computed to be: 7200 190: ..... 190: ---------------------------------------------------------------------- 190: Ran 5 tests in 0.016s 190: 190: OK 190: Testing tert-butyldimethylsilyl 190: Testing methoxytrityl 190: Testing tetrahydropyranyl 190: Testing methoxymethyl_ether 190: Testing beta-Methoxyethoxymethyl_ether 190: Testing benzyl 190: Testing trimethylsilyl 190: Testing benzoyl 190: Testing pivaloyl 190: Testing triisopropylsilyl 190: Testing acetyl 190: Testing para-methoxybenzyl_ether 190: Testing triphenylmethyl 190: Testing phthaloyl 190: Testing trimethylsilylethoxymethyl 190: Testing para-methoxyphenyl 190: Testing tosyl 190: Testing tert-butyloxycarbonyl 190: Testing trifluoroacetyl 190: Testing benzoyl 190: Testing 9-fluorenylmethyloxycarbonyl 190: Testing benzylamine 190: Testing acetamide 190: Testing carbobenzyloxy 190: Testing Acetal/Ketal 190: Testing tert-butyldimethylsilyl 190: Testing methoxytrityl 190: Testing tetrahydropyranyl 190: Testing methoxymethyl_ether 190: Testing beta-Methoxyethoxymethyl_ether 190: Testing benzyl 190: Testing trimethylsilyl 190: Testing benzoyl 190: Testing pivaloyl 190: Testing triisopropylsilyl 190: Testing acetyl 190: Testing para-methoxybenzyl_ether 190: Testing triphenylmethyl 190: Testing phthaloyl 190: Testing trimethylsilylethoxymethyl 190: Testing para-methoxyphenyl 190: Testing tosyl 190: Testing tert-butyloxycarbonyl 190: Testing trifluoroacetyl 190: Testing benzoyl 190: Testing 9-fluorenylmethyloxycarbonyl 190: Testing benzylamine 190: Testing acetamide 190: Testing carbobenzyloxy 190: Testing Acetal/Ketal 187/254 Test #190: pyDeprotect ............................ Passed 0.12 sec test 193 Start 193: trajectoryTest 193: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Trajectory/trajectoryTest 193: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Trajectory 193: Test timeout computed to be: 7200 188: VS001: PASSED 188: VS002: PASSED 188: VS003: PASSED 188: VS004: PASSED 188: VS005: PASSED 188: VS006: PASSED 188: VS007: PASSED 188: VS008: PASSED 188: VS009: PASSED 188: VS010: PASSED 188: VS011: PASSED 188: VS012: PASSED 188: VS013: PASSED 188: VS014: PASSED 188: VS015: PASSED 188: VS016: PASSED 188: VS017: PASSED 188: VS018: PASSED 188: VS019: PASSED 188: VS020: PASSED 188: VS021: PASSED 188: VS022: PASSED 188: VS023: PASSED 188: VS024: PASSED 188: VS025: PASSED 188: VS026: PASSED 188: VS027: PASSED 188: VS028: PASSED 188: VS029: PASSED 188: VS030: PASSED 188: VS031: PASSED 188: VS032: PASSED 188: VS033: PASSED 188: VS034: PASSED 188: VS035: PASSED 188: VS036: PASSED 188: VS037: PASSED 188: VS038: PASSED 188: VS039: PASSED 188: VS040: PASSED 188: VS041: PASSED 188: VS042: PASSED 188: VS043: PASSED 188: VS044: PASSED 188: VS045: PASSED 188: VS046: PASSED 188: VS047: PASSED 188: VS048: PASSED 188: VS049: PASSED 188: VS050: PASSED 188: VS051: PASSED 188: VS052: PASSED 188: VS053: PASSED 188: VS054: PASSED 188: VS055: PASSED 188: VS056: PASSED 188: VS057: PASSED 188: VS058: PASSED 188: VS059: PASSED 188: VS060: PASSED 188: VS061: PASSED 188: VS062: PASSED 188: VS063: PASSED 188: VS064: PASSED 188: VS065: PASSED 188: VS066: PASSED 188: VS067: PASSED 188: VS068: PASSED 188: VS069: PASSED 188: VS070: PASSED 188: VS071: PASSED 188: VS072: PASSED 188: VS073: PASSED 188: VS074: PASSED 188: VS075: PASSED 188: VS076: PASSED 188: VS077: PASSED 188: VS078: PASSED 188: VS079: PASSED 188: VS080: PASSED 188: VS081: PASSED 188: VS082: PASSED 188: VS083: PASSED 188: VS084: PASSED 188: VS085: PASSED 188: VS086: PASSED 188: VS087: PASSED 188: VS088: PASSED 188: VS089: PASSED 188: VS090: PASSED 188: VS091: PASSED 188: VS092: PASSED 188: VS093: PASSED 188: VS094: PASSED 188: VS095: PASSED 188: VS096: PASSED 188: VS097: PASSED 188: VS098: PASSED 188: VS099: PASSED 188: VS100: PASSED 188: VS101: PASSED 188: VS102: PASSED 188: VS103: PASSED 188: VS104: PASSED 188: VS105: PASSED 188: VS106: PASSED 188: VS107: PASSED 188: VS108: PASSED 188: VS109: PASSED 188: VS110: PASSED 188: VS111: PASSED 188: VS112: PASSED 188: VS113: PASSED 188: VS114: PASSED 188: VS115: PASSED 188: VS116: PASSED 188: VS117: PASSED 188: VS118: PASSED 188: VS119: PASSED 188: VS120: PASSED 188: VS121: PASSED 188: VS122: PASSED 188: VS123: PASSED 188: VS124: PASSED 188: VS125: PASSED 188: VS126: PASSED 188: VS127: PASSED 188: VS128: PASSED 188: VS129: PASSED 188: VS130: PASSED 188: VS131: PASSED 188: VS132: PASSED 188: VS133: PASSED 188: VS134: PASSED 188: VS135: PASSED 188: VS136: PASSED 188: VS137: PASSED 188: VS138: PASSED 188: VS139: PASSED 188: VS140: PASSED 188: VS141: PASSED 188: VS142: PASSED 188: VS143: PASSED 188: VS144: PASSED 188: VS145: PASSED 188: VS146: PASSED 188: VS147: PASSED 188: VS148: PASSED 188: VS149: PASSED 188: VS150: PASSED 188: VS151: PASSED 188: VS152: PASSED 188: VS153: PASSED 188: VS154: PASSED 188: VS155: PASSED 188: VS156: PASSED 188: VS157: PASSED 188: VS158: PASSED 188: VS159: PASSED 188: VS160: PASSED 188: VS161: PASSED 188: VS162: PASSED 188: VS163: PASSED 188: VS164: PASSED 188: VS165: PASSED 188: VS166: PASSED 188: VS167: PASSED 188: VS168: PASSED 188: VS169: PASSED 188: VS170: PASSED 188: VS171: PASSED 188: VS172: PASSED 188: VS173: PASSED 188: VS174: PASSED 188: VS175: PASSED 188: VS176: PASSED 188: VS177: PASSED 188: VS178: PASSED 188: VS179: PASSED 188: VS180: PASSED 188: VS181: PASSED 188: VS182: PASSED 188: VS183: PASSED 188: VS184: PASSED 188: VS185: PASSED 188: VS186: PASSED 188: VS187: PASSED 188: VS188: PASSED 188: VS189: PASSED 188: VS190: PASSED 188: VS191: PASSED 188: VS192: PASSED 188: VS193: PASSED 188: VS194: PASSED 188: VS195: PASSED 188: VS196: PASSED 188: VS197: PASSED 188: VS198: PASSED 188: VS199: PASSED 188: VS200: PASSED 188: VS201: PASSED 188: VS202: PASSED 188: VS203: PASSED 188: VS204: PASSED 188: VS205: PASSED 188: VS206: PASSED 188: VS207: PASSED 188: VS208: PASSED 188: VS209: PASSED 188: VS210: PASSED 188: VS211: PASSED 188: VS212: PASSED 188: VS213: PASSED 188: VS214: PASSED 188: VS215: PASSED 188: VS216: PASSED 188: VS217: PASSED 188: VS218: PASSED 188: VS219: PASSED 188: VS220: PASSED 188: VS221: PASSED 188: VS222: PASSED 188: VS223: PASSED 188: VS224: PASSED 188: VS225: PASSED 188: VS226: PASSED 188: VS227: PASSED 188: VS228: PASSED 188: VS229: PASSED 188: VS230: PASSED 188: VS231: PASSED 188: VS232: PASSED 188: VS233: PASSED 188: VS234: PASSED 188: VS235: PASSED 188: VS236: PASSED 188: VS237: PASSED 188: VS238: PASSED 188: VS239: PASSED 188: VS240: PASSED 188: VS241: PASSED 188: VS242: PASSED 188: VS243: PASSED 188: VS244: PASSED 188: VS245: PASSED 188: VS246: PASSED 188: VS247: PASSED 188: VS248: PASSED 188: VS249: PASSED 188: VS250: PASSED 188: VS251: PASSED 188: VS252: PASSED 188: VS253: PASSED 188: VS254: PASSED 188: VS255: PASSED 188: VS256: PASSED 188: VS257: PASSED 188: VS258: PASSED 188: VS259: PASSED 188: VS260: PASSED 188: VS261: PASSED 188: VS262: PASSED 188: VS263: PASSED 188: VS264: PASSED 188: VS265: PASSED 188: VS266: PASSED 188: VS267: PASSED 188: VS268: PASSED 188: VS269: PASSED 188: VS270: PASSED 188: VS271: PASSED 188: VS272: PASSED 188: VS273: PASSED 188: VS274: PASSED 188: VS275: PASSED 188: VS276: PASSED 188: VS277: PASSED 188: VS278: PASSED 188: VS279: PASSED 188: VS280: PASSED 188: VS281: PASSED 188: VS282: PASSED 188: VS283: PASSED 188: VS284: PASSED 188: VS285: PASSED 188: VS286: PASSED 188: VS287: PASSED 188: VS288: PASSED 188: VS289: PASSED 188: VS290: PASSED 188: VS291: PASSED 188: VS292: PASSED 188: VS293: PASSED 188: VS294: PASSED 188: VS295: PASSED 188: VS296: PASSED 188: VS297: PASSED 188: VS298: PASSED 188: VS299: PASSED 188: VS300: PASSED 188: Check finished: 0 molecules failed. 188: Failed: 188/254 Test #188: pyCIPLabelsValidation .................. Passed 2.84 sec test 194 Start 194: substructLibraryTest 194: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary/substructLibraryTest 194: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary 194: Test timeout computed to be: 7200 192: ..... 192: ---------------------------------------------------------------------- 192: Ran 5 tests in 0.007s 192: 192: OK 189/254 Test #192: pyReducedGraphs ........................ Passed 0.17 sec test 195 Start 195: substructLibraryCatchTest 195: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary/substructLibraryCatchTest 195: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary 195: Test timeout computed to be: 7200 183: ......[09:22:44] 183: 183: **** 183: Invariant Violation 183: molzip: bond info not properly setup for bgn atom with label:1 183: Violation occurred on line 563 in file ./Code/GraphMol/ChemTransforms/MolZip.cpp 183: Failed Expression: bond.a 183: ---------- 183: Stacktrace: 183: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 183: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 183: 2# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&, std::optional, std::allocator > > >&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 183: 3# RDKit::molzip(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 183: 4# RDKit::molzip(RDKit::ROMol const&, RDKit::MolzipParams const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitChemTransforms.so.1 183: 5# RDKit::SynthonSpaceSearch::SynthonSet::makeSynthonSearchMols() in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 183: 6# RDKit::SynthonSpaceSearch::SynthonSpace::readStream(std::istream&, bool&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 183: 7# RDKit::SynthonSpaceSearch::SynthonSpace::readTextFile(std::__cxx11::basic_string, std::allocator > const&, bool&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSynthonSpaceSearch.so.1 183: 8# RDKit::readTextFile_helper(RDKit::SynthonSpaceSearch::SynthonSpace&, std::__cxx11::basic_string, std::allocator > const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSynthonSpaceSearch.so 183: 9# boost::python::objects::caller_py_function_impl, std::allocator > const&), boost::python::default_call_policies, boost::mpl::vector3, std::allocator > const&> > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSynthonSpaceSearch.so 183: 10# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 183: 11# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 183: 12# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 183: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 183: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 183: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 183: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 183: 17# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 183: 18# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 183: 19# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 183: 20# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 183: 21# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 183: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 183: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 183: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 183: 25# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 183: 26# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 183: 27# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 183: 28# _PyObject_MakeTpCall in /usr/bin/python3 183: 29# 0x00000000000584B9 in /usr/bin/python3 183: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 183: 31# 0x00000000001DD0A7 in /usr/bin/python3 183: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 183: 33# 0x00000000002A967B in /usr/bin/python3 183: 34# 0x000000000024191D in /usr/bin/python3 183: 35# _PyObject_MakeTpCall in /usr/bin/python3 183: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 183: 37# 0x00000000001DD0A7 in /usr/bin/python3 183: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 183: 39# 0x00000000002A967B in /usr/bin/python3 183: 40# 0x000000000024191D in /usr/bin/python3 183: 41# _PyObject_MakeTpCall in /usr/bin/python3 183: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 183: 43# 0x00000000001DD0A7 in /usr/bin/python3 183: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 183: 45# 0x00000000002A967B in /usr/bin/python3 183: 46# 0x000000000024191D in /usr/bin/python3 183: 47# _PyObject_MakeTpCall in /usr/bin/python3 183: 48# _PyEval_EvalFrameDefault in /usr/bin/python3 183: 49# 0x00000000001AE9E2 in /usr/bin/python3 183: 50# _PyObject_MakeTpCall in /usr/bin/python3 183: 51# _PyEval_EvalFrameDefault in /usr/bin/python3 183: 52# PyEval_EvalCode in /usr/bin/python3 183: 53# 0x00000000002C1C44 in /usr/bin/python3 183: 54# 0x00000000002BEBDF in /usr/bin/python3 183: 55# 0x00000000002D0454 in /usr/bin/python3 183: 56# 0x00000000002CFEE9 in /usr/bin/python3 183: 57# 0x00000000002CFD1E in /usr/bin/python3 183: 58# Py_RunMain in /usr/bin/python3 183: 59# Py_BytesMain in /usr/bin/python3 183: 60# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 183: 61# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 183: 62# _start in /usr/bin/python3 183: ---------- 183: **** 183: 183: [09:22:44] Error:: in reaction amide-1 :: building molecule from synthons : 1-1 (c1cc[1*]ccc1C(=O)[1*]) and 2-1 ([1*]N1CCCC1) 183: molzip: bond info not properly setup for bgn atom with label:1 183: [09:22:44] Explicit valence for atom # 4 C, 5, is greater than permitted 183: [09:22:44] Error:: in reaction error-1 :: building molecule from synthons : 1-1 (C(=[2*])=CC=[1*]) and 2-1 (ClC([2*])=CN=[1*]) 183: Explicit valence for atom # 4 C, 5, is greater than permitted 195: Randomness seeded to: 3068132874 195: =============================================================================== 195: All tests passed (171 assertions in 5 test cases) 195: 190/254 Test #195: substructLibraryCatchTest .............. Passed 0.11 sec test 196 Start 196: pySubstructLibrary 196: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/SubstructLibrary/Wrap/rough_test.py" 196: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap 196: Test timeout computed to be: 7200 191/254 Test #193: trajectoryTest ......................... Passed 0.19 sec test 197 Start 197: testRGroupDecomp 197: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/testRGroupDecomp 197: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition 197: Test timeout computed to be: 7200 197: Randomness seeded to: 1842327404 197: [09:22:44] Non terminal R group defined. To allow set allowNonTerminalRGroups in RGroupDecompositionParameters 197: [09:22:44] WARNING: not removing hydrogen atom with dummy atom neighbors 196: ......[09:22:45] 196: 196: **** 196: Pre-condition Violation 196: RingInfo not initialized 196: Violation occurred on line 52 in file ./Code/GraphMol/RingInfo.cpp 196: Failed Expression: df_init 196: ---------- 196: Stacktrace: 196: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 196: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 196: 2# RDKit::RingInfo::numAtomRings(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 196: 3# 0x00000000000BFDF1 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSmilesParse.so.1 196: 4# RDKit::AtomRingQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSmilesParse.so.1 196: 5# Queries::AndQuery::Match(RDKit::Atom const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 196: 6# RDKit::atomCompat(RDKit::Atom const*, RDKit::Atom const*, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 196: 7# boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::IsFeasiblePair(unsigned int, unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 196: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 196: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 196: 10# RDKit::SubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 196: 11# bool RDKit::SubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, std::vector, std::allocator > >&, bool, bool, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 12# bool RDKit::HasSubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, bool, bool, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 13# 0x0000000000264280 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 14# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 196: 15# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 196: 16# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 196: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 196: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 196: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 196: 20# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 21# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 22# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 23# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 24# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 25# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 26# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 196: 27# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 196: 28# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 196: 29# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 196: 30# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 196: 31# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 196: 32# _PyObject_MakeTpCall in /usr/bin/python3 196: 33# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 34# 0x00000000001DD0A7 in /usr/bin/python3 196: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 36# 0x00000000002A967B in /usr/bin/python3 196: 37# 0x000000000024191D in /usr/bin/python3 196: 38# _PyObject_MakeTpCall in /usr/bin/python3 196: 39# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 40# 0x00000000001DD0A7 in /usr/bin/python3 196: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 42# 0x00000000002A967B in /usr/bin/python3 196: 43# 0x000000000024191D in /usr/bin/python3 196: 44# _PyObject_MakeTpCall in /usr/bin/python3 196: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 46# 0x00000000001DD0A7 in /usr/bin/python3 196: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 48# 0x00000000002A967B in /usr/bin/python3 196: 49# 0x000000000024191D in /usr/bin/python3 196: 50# _PyObject_MakeTpCall in /usr/bin/python3 196: 51# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 52# 0x00000000001AE9E2 in /usr/bin/python3 196: 53# _PyObject_MakeTpCall in /usr/bin/python3 196: 54# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 55# PyEval_EvalCode in /usr/bin/python3 196: 56# 0x00000000002C1C44 in /usr/bin/python3 196: 57# 0x00000000002BEBDF in /usr/bin/python3 196: 58# 0x00000000002D0454 in /usr/bin/python3 196: 59# 0x00000000002CFEE9 in /usr/bin/python3 196: 60# 0x00000000002CFD1E in /usr/bin/python3 196: 61# Py_RunMain in /usr/bin/python3 196: 62# Py_BytesMain in /usr/bin/python3 196: 63# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 196: 64# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 196: 65# _start in /usr/bin/python3 196: ---------- 196: **** 196: 196: [09:22:45] 196: 196: **** 196: Pre-condition Violation 196: RingInfo not initialized 196: Violation occurred on line 129 in file ./Code/GraphMol/RingInfo.cpp 196: Failed Expression: df_init 196: ---------- 196: Stacktrace: 196: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 196: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 196: 2# RDKit::RingInfo::numBondRings(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 196: 3# 0x00000000000EE740 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 196: 4# Queries::EqualityQuery::Match(RDKit::Bond const*) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 196: 5# RDKit::bondCompat(RDKit::Bond const*, RDKit::Bond const*, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 196: 6# boost::detail::VF2SubState const, RDKit::detail::AtomLabelFunctor, RDKit::detail::BondLabelFunctor, RDKit::MolMatchFinalCheckFunctor>::IsFeasiblePair(unsigned int, unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 196: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 196: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 196: 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-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 196: 10# RDKit::SubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, RDKit::SubstructMatchParameters const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitSubstructMatch.so.1 196: 11# bool RDKit::SubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, std::vector, std::allocator > >&, bool, bool, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 12# bool RDKit::HasSubstructMatch(RDKit::ROMol const&, RDKit::ROMol const&, bool, bool, bool) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 13# 0x0000000000264280 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 14# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 196: 15# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 196: 16# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 196: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 196: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 196: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 196: 20# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 21# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 22# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 23# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 24# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 25# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 196: 26# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 196: 27# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 196: 28# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 196: 29# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 196: 30# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 196: 31# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 196: 32# _PyObject_MakeTpCall in /usr/bin/python3 196: 33# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 34# 0x00000000001DD0A7 in /usr/bin/python3 196: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 36# 0x00000000002A967B in /usr/bin/python3 196: 37# 0x000000000024191D in /usr/bin/python3 196: 38# _PyObject_MakeTpCall in /usr/bin/python3 196: 39# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 40# 0x00000000001DD0A7 in /usr/bin/python3 196: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 42# 0x00000000002A967B in /usr/bin/python3 196: 43# 0x000000000024191D in /usr/bin/python3 196: 44# _PyObject_MakeTpCall in /usr/bin/python3 196: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 46# 0x00000000001DD0A7 in /usr/bin/python3 196: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 48# 0x00000000002A967B in /usr/bin/python3 196: 49# 0x000000000024191D in /usr/bin/python3 196: 50# _PyObject_MakeTpCall in /usr/bin/python3 196: 51# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 52# 0x00000000001AE9E2 in /usr/bin/python3 196: 53# _PyObject_MakeTpCall in /usr/bin/python3 196: 54# _PyEval_EvalFrameDefault in /usr/bin/python3 196: 55# PyEval_EvalCode in /usr/bin/python3 196: 56# 0x00000000002C1C44 in /usr/bin/python3 196: 57# 0x00000000002BEBDF in /usr/bin/python3 196: 58# 0x00000000002D0454 in /usr/bin/python3 196: 59# 0x00000000002CFEE9 in /usr/bin/python3 196: 60# 0x00000000002CFD1E in /usr/bin/python3 196: 61# Py_RunMain in /usr/bin/python3 196: 62# Py_BytesMain in /usr/bin/python3 196: 63# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 196: 64# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 196: 65# _start in /usr/bin/python3 196: ---------- 196: **** 196: 194: Randomness seeded to: 3787310035 194: [09:22:46] SMILES[09:22:46] [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] [09:22:46] SMILES Parse Error: syntax error[09:22:46] [09:22:46] SMILESSMILES Parse Error: check for mistakes around position 1SMILES: Parse Error: syntax error 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: while parsing: dsafsdf while parsing: [09:22:46] dsafsdf 194: [09:22:46] [09:22:46] SMILES Parse Error: check for mistakes around position 1: Parse Error: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES[09:22:46] 194: Parse Error: [09:22:46] syntax error while parsing: 194: Parse Error: check for mistakes around position 1SMILES[09:22:46] SMILESSMILES Parse Error: Parse Error: [09:22:46] dsafsdfSMILES[09:22:46] SMILESSMILES Parse Error: Parse Error: 194: SMILES[09:22:46] Parse Error: [09:22:46] ^ 194: syntax error[09:22:46] while parsing: dsafsdfSMILES Parse Error: [09:22:46] 194: [09:22:46] :Failed parsing SMILES 'dsafsdf' Parse Error: for input: 'dsafsdf' 194: syntax errorsyntax error while parsing: dsafsdf 194: [09:22:46] Parse Error: [09:22:46] syntax errorSMILESsyntax error[09:22:46] 194: syntax errorSMILESsyntax errorFailed parsing SMILES 'dsafsdf' while parsing: while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position dsafsdfdsafsdf 194: 194: SMILES[09:22:46] SMILES Parse Error: check for mistakes around position Parse Error: 1:SMILES 194: [09:22:46] dsafsdf 194: while parsing: dsafsdf 194: while parsing: [09:22:46] SMILES Parse Error: while parsing: syntax error while parsing: dsafsdfsyntax error Parse Error: check for mistakes around position while parsing: dsafsdf 194: [09:22:46] for input: '[09:22:46] SMILES1 Parse Error: check for mistakes around position :[09:22:46] 1 Parse Error: check for mistakes around position Parse Error: 194: 1[09:22:46] dsafsdf[09:22:46] :Failed parsing SMILES 'dsafsdf' for input: ' 194: [09:22:46] 1dsafsdfdsafsdfdsafsdfSMILES 194: SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf' 194: 194: SMILES 194: dsafsdf Parse Error: dsafsdf 194: : Parse Error: check for mistakes around position 194: 194: syntax error[09:22:46] while parsing: SMILES[09:22:46] 'SMILESdsafsdf^1:dsafsdf 194: [09:22:46] Parse Error: check for mistakes around position 1 194: : 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: check for mistakes around position 194: [09:22:46] Parse Error: check for mistakes around position ^ 194: [09:22:46] 194: dsafsdf1 194: [09:22:46] 1[09:22:46] SMILES[09:22:46] [09:22:46] SMILESSMILES Parse Error: check for mistakes around position Parse Error: :Failed parsing SMILES 'dsafsdf'[09:22:46] 194: ^1: 194: Parse Error: 194: [09:22:46] :^[09:22:46] 194: SMILES[09:22:46] dsafsdf 194: 194: Parse Error: :Failed parsing SMILES 'dsafsdf' 194: 194: 194: [09:22:46] [09:22:46] [09:22:46] SMILES[09:22:46] Failed parsing SMILES 'dsafsdf' for input: ' for input: '[09:22:46] dsafsdfdsafsdf'[09:22:46] dsafsdf^ 194: 194: 194: dsafsdf' 194: 194: dsafsdf 194: [09:22:46] [09:22:46] SMILES Parse Error: check for mistakes around position for input: ' Parse Error: dsafsdfFailed parsing SMILES 'dsafsdf'1^: 194: ^[09:22:46] 194: [09:22:46] SMILES[09:22:46] Parse Error: for input: 'syntax error while parsing: 'dsafsdf[09:22:46] ' 194: 194: SMILESSMILES[09:22:46] [09:22:46] [09:22:46] Parse Error: dsafsdf[09:22:46] Parse Error: SMILESsyntax errordsafsdf 194: ^ 194: 194: 194: while parsing: dsafsdf^ 194: 194: [09:22:46] [09:22:46] SMILES Parse Error: SMILES[09:22:46] Parse Error: SMILES[09:22:46] Parse Error: Failed parsing SMILES 'dsafsdf'[09:22:46] SMILES for input: ' Parse Error: check for mistakes around position [09:22:46] SMILES1[09:22:46] :SMILES[09:22:46] Parse Error: SMILESFailed parsing SMILES 'dsafsdf' Parse Error: ^ 194: ^ 194: 194: [09:22:46] [09:22:46] SMILESsyntax errorFailed parsing SMILES 'dsafsdf' Parse Error: [09:22:46] dsafsdfFailed parsing SMILES 'dsafsdf' for input: '[09:22:46] dsafsdf' 194: [09:22:46] SMILES Parse Error: check for mistakes around position SMILESSMILES Parse Error: while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1[09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdfdsafsdfFailed parsing SMILES 'dsafsdf' Parse Error: for input: 'dsafsdfsyntax errorFailed parsing SMILES 'dsafsdf' Parse Error: dsafsdfsyntax error Parse Error: while parsing: SMILES for input: ' Parse Error: ' 194: 194: [09:22:46] for input: ' while parsing: 1:syntax error while parsing: dsafsdf 194: :[09:22:46] dsafsdfsyntax error' 194: dsafsdfdsafsdf 194: [09:22:46] dsafsdf 194: for input: 'dsafsdf'' 194: while parsing: SMILES 194: '[09:22:46] SMILES^ 194: Parse Error: check for mistakes around position 194: 1 194: 194: [09:22:46] dsafsdf[09:22:46] 194: ^dsafsdf 194: 194: [09:22:46] [09:22:46] [09:22:46] 194: SMILESFailed parsing SMILES 'dsafsdf' for input: 'SMILES Parse Error: Parse Error: check for mistakes around position syntax errordsafsdf[09:22:46] SMILESSMILES[09:22:46] [09:22:46] dsafsdf' Parse Error: check for mistakes around position 194: [09:22:46] SMILES Parse Error: check for mistakes around position [09:22:46] SMILESSMILES1 Parse Error: while parsing: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: Parse Error: Failed parsing SMILES 'dsafsdf'dsafsdf 194: [09:22:46] SMILES Parse Error: syntax error 194: 1 Parse Error: check for mistakes around position for input: ' while parsing: [09:22:46] [09:22:46] Parse Error: dsafsdf[09:22:46] '[09:22:46] 1: 194: ^[09:22:46] 1syntax error: while parsing: ^ 194: dsafsdfdsafsdf' 194: SMILES 194: [09:22:46] :dsafsdf 194: 194: [09:22:46] [09:22:46] SMILESSMILES Parse Error: 194: : 194: SMILES 194: Parse Error: SMILESsyntax error while parsing: dsafsdf 194: 194: 194: Parse Error: [09:22:46] SMILES[09:22:46] Parse Error: check for mistakes around position 1[09:22:46] :SMILES^ 194: Parse Error: [09:22:46] Parse Error: dsafsdf 194: [09:22:46] Failed parsing SMILES 'dsafsdf'^SMILES[09:22:46] syntax error Parse Error: check for mistakes around position 194: syntax error1Failed parsing SMILES 'dsafsdf' while parsing: [09:22:46] Parse Error: dsafsdfsyntax error[09:22:46] 194: [09:22:46] :[09:22:46] dsafsdf 194: SMILESSMILES Parse Error: check for mistakes around position 1: 194: :[09:22:46] dsafsdf 194: Parse Error: [09:22:46] SMILES for input: 'dsafsdf while parsing: dsafsdf[09:22:46] 194: 194: [09:22:46] [09:22:46] while parsing: for input: '[09:22:46] SMILES Parse Error: check for mistakes around position 1 194: [09:22:46] SMILES Parse Error: : 194: [09:22:46] dsafsdf 194: [09:22:46] ^dsafsdfFailed parsing SMILES 'dsafsdf' 194: for input: 'dsafsdf' 194: dsafsdf 194: dsafsdf[09:22:46] dsafsdf[09:22:46] Parse Error: syntax error' while parsing: ' 194: Failed parsing SMILES 'dsafsdf'[09:22:46] 194: dsafsdf[09:22:46] 194: 194: [09:22:46] 194: SMILES for input: 'SMILES 194: Parse Error: SMILES^^ Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf[09:22:46] 194: [09:22:46] [09:22:46] ^ 194: 194: [09:22:46] ^[09:22:46] dsafsdfdsafsdf 194: SMILES[09:22:46] ^ 194: 194: [09:22:46] dsafsdf^[09:22:46] '[09:22:46] [09:22:46] 194: 194: Parse Error: 194: SMILESSMILES 194: [09:22:46] [09:22:46] Failed parsing SMILES 'dsafsdf' Parse Error: Parse Error: SMILESsyntax error Parse Error: for input: ' while parsing: dsafsdfsyntax error^' 194: [09:22:46] SMILESSMILES 194: SMILESSMILESSMILES Parse Error: syntax error[09:22:46] SMILES while parsing: Parse Error: [09:22:46] Failed parsing SMILES 'dsafsdf'Failed parsing SMILES 'dsafsdf' for input: ' Parse Error: Failed parsing SMILES 'dsafsdf'syntax error for input: '[09:22:46] [09:22:46] dsafsdf' 194: dsafsdf while parsing: dsafsdfdsafsdf Parse Error: check for mistakes around position SMILES while parsing: for input: ' Parse Error: dsafsdf1'SMILES Parse Error: check for mistakes around position [09:22:46] 1: 194: 194: 194: [09:22:46] : Parse Error: ' 194: [09:22:46] Parse Error: SMILESFailed parsing SMILES 'dsafsdf' for input: 'SMILES Parse Error: syntax error[09:22:46] 194: while parsing: [09:22:46] dsafsdfdsafsdfSMILES 194: Parse Error: syntax error Parse Error: dsafsdf[09:22:46] SMILESSMILES[09:22:46] Failed parsing SMILES 'dsafsdf' Parse Error: check for mistakes around position for input: 'Failed parsing SMILES 'dsafsdf' 194: dsafsdf[09:22:46] '1syntax error': 194: 194: [09:22:46] while parsing: dsafsdfdsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1 while parsing: : for input: ' 194: [09:22:46] 194: SMILESdsafsdfSMILES 194: Parse Error: check for mistakes around position dsafsdfSMILES1dsafsdf Parse Error: 194: syntax error' Parse Error: 194: 194: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 194: 1dsafsdf:Failed parsing SMILES 'dsafsdf' 194: [09:22:46] while parsing: dsafsdf for input: '[09:22:46] [09:22:46] Parse Error: ^syntax error Parse Error: check for mistakes around position ^1 194: 194: ^[09:22:46] 194: while parsing: [09:22:46] 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILESdsafsdf Parse Error: check for mistakes around position :[09:22:46] dsafsdf 194: [09:22:46] 'SMILES[09:22:46] Parse Error: SMILES1[09:22:46] 194: Parse Error: check for mistakes around position dsafsdfSMILES Parse Error: check for mistakes around position 194: ^[09:22:46] 194: dsafsdf 194: [09:22:46] :1SMILES1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf':[09:22:46] dsafsdfSMILES 194: Parse Error: Parse Error: 194: syntax error:[09:22:46] 194: SMILES[09:22:46] Parse Error: while parsing: [09:22:46] Failed parsing SMILES 'dsafsdf' 194: [09:22:46] dsafsdfFailed parsing SMILES 'dsafsdf' 194: [09:22:46] SMILESFailed parsing SMILES 'dsafsdf'[09:22:46] for input: ' 194: dsafsdf[09:22:46] dsafsdf 194: [09:22:46] dsafsdf^ 194: ' 194: SMILES Parse Error: check for mistakes around position 1: 194: ' 194: 194: [09:22:46] ^ 194: ^[09:22:46] 194: for input: '[09:22:46] dsafsdf'dsafsdf[09:22:46] SMILES 194: Parse Error: SMILES[09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf'[09:22:46] [09:22:46] dsafsdfSMILES for input: ' 194: Parse Error: check for mistakes around position [09:22:46] [09:22:46] [09:22:46] for input: 'SMILESdsafsdf'Failed parsing SMILES 'dsafsdf' 194: Parse Error: check for mistakes around position [09:22:46] Parse Error: 1Failed parsing SMILES 'dsafsdf'dsafsdfdsafsdf' 194: for input: ' for input: ':1 194: Parse Error: dsafsdf'dsafsdf^syntax error 194: while parsing: [09:22:46] 'SMILESdsafsdf 194: 194: [09:22:46] 194: SMILES 194: :SMILES[09:22:46] 194: dsafsdf Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^[09:22:46] SMILES Parse Error: Parse Error: syntax errorsyntax error while parsing: while parsing: dsafsdf 194: Parse Error: [09:22:46] 194: ^[09:22:46] 194: [09:22:46] Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: 194: [09:22:46] SMILES Parse Error: dsafsdfFailed parsing SMILES 'dsafsdf' 194: SMILES Parse Error: check for mistakes around position SMILES[09:22:46] [09:22:46] SMILES Parse Error: dsafsdf 194: [09:22:46] Failed parsing SMILES 'dsafsdf' Parse Error: syntax error while parsing: 1dsafsdf for input: ' 194: for input: 'dsafsdf'dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] [09:22:46] SMILES: Parse Error: check for mistakes around position 194: [09:22:46] 194: ' 194: ^ 194: ^[09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] 194: [09:22:46] dsafsdf 194: [09:22:46] 1:[09:22:46] dsafsdf^ 194: 194: 194: [09:22:46] [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: '[09:22:46] SMILESSMILESdsafsdf Parse Error: Failed parsing SMILES 'dsafsdf'dsafsdf for input: 'dsafsdf' 194: ^ 194: [09:22:46] ^ 194: 194: [09:22:46] SMILES Parse Error: ' 194: [09:22:46] [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf'[09:22:46] for input: 'SMILESdsafsdf' 194: Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'syntax error while parsing: dsafsdf' 194: dsafsdf[09:22:46] 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILESSMILESSMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: '^dsafsdf Parse Error: check for mistakes around position 1: Parse Error: check for mistakes around position 194: 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^[09:22:46] 194: dsafsdf 194: [09:22:46] [09:22:46] ^SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: 194: Parse Error: check for mistakes around position [09:22:46] SMILES1': 194: Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error[09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: while parsing: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf'[09:22:46] dsafsdf 194: [09:22:46] SMILES[09:22:46] SMILES Parse Error: syntax errorSMILES[09:22:46] Parse Error: syntax error while parsing: dsafsdf 194: SMILES Parse Error: check for mistakes around position Parse Error: syntax error while parsing: 1: 194: dsafsdf 194: while parsing: dsafsdf 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] [09:22:46] [09:22:46] 194: [09:22:46] [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] [09:22:46] SMILES[09:22:46] SMILES Parse Error: syntax error while parsing: [09:22:46] SMILESSMILES Parse Error: [09:22:46] [09:22:46] [09:22:46] dsafsdf 194: SMILES Parse Error: Parse Error: check for mistakes around position Parse Error: syntax error while parsing: dsafsdfFailed parsing SMILES 'dsafsdf'syntax error[09:22:46] 1SMILES:[09:22:46] SMILES[09:22:46] SMILESSMILESSMILES Parse Error: check for mistakes around position 1:[09:22:46] 194: SMILES for input: ' 194: Parse Error: while parsing: SMILES Parse Error: Parse Error: check for mistakes around position SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] Parse Error: check for mistakes around position SMILES Parse Error: syntax error while parsing: syntax error while parsing: dsafsdf 194: [09:22:46] syntax error while parsing: 1dsafsdfdsafsdf 194: 194: dsafsdf Parse Error: SMILES[09:22:46] SMILESSMILES: 194: ' Parse Error: syntax error while parsing: dsafsdf[09:22:46] Parse Error: check for mistakes around position Parse Error: syntax error while parsing: 194: [09:22:46] SMILES Parse Error: check for mistakes around position 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] [09:22:46] dsafsdfSMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: 194: 1[09:22:46] 194: 1 Parse Error: check for mistakes around position dsafsdf:SMILES Parse Error: check for mistakes around position SMILES[09:22:46] Parse Error: check for mistakes around position SMILES1[09:22:46] 194: 1syntax error: 194: : while parsing: dsafsdf[09:22:46] 194: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position Parse Error: check for mistakes around position :1 194: [09:22:46] :dsafsdf 194: 194: [09:22:46] 1 194: [09:22:46] 1[09:22:46] 194: SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf1dsafsdf[09:22:46] dsafsdfdsafsdf 194: 194: [09:22:46] ^[09:22:46] 194: [09:22:46] : 194: :dsafsdf[09:22:46] dsafsdfSMILES[09:22:46] ^[09:22:46] 194: [09:22:46] 194: Parse Error: check for mistakes around position : 194: 194: ^ 194: [09:22:46] ^ 194: SMILES Parse Error: 194: 194: [09:22:46] SMILES[09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf'dsafsdf[09:22:46] [09:22:46] dsafsdfdsafsdf 194: Parse Error: 1[09:22:46] [09:22:46] syntax error 194: while parsing: [09:22:46] dsafsdfdsafsdf 194: 194: [09:22:46] [09:22:46] [09:22:46] ^SMILES 194: SMILES[09:22:46] SMILES[09:22:46] Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' Parse Error: SMILESFailed parsing SMILES 'dsafsdf' Parse Error: Parse Error: Failed parsing SMILES 'dsafsdf'syntax error^ for input: ' 194: 194: [09:22:46] ^[09:22:46] 194: 194: for input: 'Failed parsing SMILES 'dsafsdf'^^[09:22:46] 194: [09:22:46] dsafsdf' 194: for input: 'dsafsdf'^ 194: 194: while parsing: : for input: '[09:22:46] 194: dsafsdfSMILESdsafsdf Parse Error: check for mistakes around position 1: 194: 194: '[09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdfdsafsdf'^SMILES[09:22:46] 194: 194: [09:22:46] SMILESdsafsdf Parse Error: Parse Error: 194: ^Failed parsing SMILES 'dsafsdf'[09:22:46] 194: for input: ' 194: 194: dsafsdfFailed parsing SMILES 'dsafsdf'[09:22:46] ' 194: 194: [09:22:46] SMILES Parse Error: [09:22:46] 194: SMILES[09:22:46] Failed parsing SMILES 'dsafsdf'SMILES[09:22:46] SMILES[09:22:46] Parse Error: syntax error[09:22:46] SMILES[09:22:46] [09:22:46] Parse Error: for input: '[09:22:46] while parsing: Parse Error: check for mistakes around position dsafsdf[09:22:46] SMILES Parse Error: syntax error while parsing: SMILESdsafsdf Parse Error: 194: Parse Error: [09:22:46] SMILESSMILES Parse Error: check for mistakes around position for input: 'dsafsdfSMILES^ 194: [09:22:46] 1SMILES Parse Error: Failed parsing SMILES 'dsafsdf'Failed parsing SMILES 'dsafsdf' for input: 'Failed parsing SMILES 'dsafsdf' 194: for input: ' for input: 'dsafsdfdsafsdf1'dsafsdf: Parse Error: 'syntax error' while parsing: 194: dsafsdf Parse Error: check for mistakes around position 194: 1: 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1dsafsdf: 194: 194: SMILES[09:22:46] syntax errorSMILES' Parse Error: 194: 194: 194: syntax error[09:22:46] dsafsdfdsafsdf: 194: 194: [09:22:46] ' 194: while parsing: 194: [09:22:46] SMILES Parse Error: dsafsdf[09:22:46] 194: [09:22:46] [09:22:46] [09:22:46] SMILESSMILESFailed parsing SMILES 'dsafsdf'[09:22:46] SMILESSMILES Parse Error: Parse Error: Failed parsing SMILES 'dsafsdf'[09:22:46] for input: 'dsafsdf while parsing: Parse Error: check for mistakes around position dsafsdf Parse Error: check for mistakes around position [09:22:46] 1^dsafsdf 194: 194: [09:22:46] Parse Error: syntax error1[09:22:46] :[09:22:46] SMILESSMILES^[09:22:46] 194: dsafsdfSMILES: while parsing: [09:22:46] ^ 194: 194: syntax error while parsing: dsafsdf Parse Error: [09:22:46] 194: dsafsdf[09:22:46] Parse Error: SMILES Parse Error: Parse Error: check for mistakes around position 194: dsafsdf 194: [09:22:46] SMILES'SMILES 194: 194: syntax error while parsing: [09:22:46] [09:22:46] Parse Error: check for mistakes around position ^[09:22:46] Parse Error: 194: Failed parsing SMILES 'dsafsdf'SMILES for input: ' Parse Error: check for mistakes around position dsafsdfsyntax error[09:22:46] 11dsafsdf'syntax error[09:22:46] 194: :dsafsdf 194: [09:22:46] 194: 194: while parsing: SMILES 194: [09:22:46] dsafsdf 194: [09:22:46] dsafsdf1SMILES:: 194: [09:22:46] dsafsdf while parsing: Parse Error: SMILES Parse Error: dsafsdf 194: [09:22:46] SMILES 194: Parse Error: check for mistakes around position 194: 1 194: [09:22:46] : for input: ' 194: syntax error[09:22:46] while parsing: [09:22:46] [09:22:46] dsafsdf 194: Failed parsing SMILES 'dsafsdf'dsafsdf[09:22:46] 194: dsafsdfSMILES' 194: [09:22:46] [09:22:46] [09:22:46] ^SMILES^[09:22:46] Parse Error: check for mistakes around position Parse Error: SMILES for input: 'SMILES 194: 194: dsafsdf[09:22:46] Parse Error: [09:22:46] Parse Error: check for mistakes around position ^Failed parsing SMILES 'dsafsdf'[09:22:46] 194: ^Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf 194: 194: ^[09:22:46] ' 194: 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdfSMILES' 194: Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf for input: 'dsafsdfdsafsdf' 194: ' 194: [09:22:46] 1: 194: [09:22:46] [09:22:46] dsafsdfSMILES1 Parse Error: Failed parsing SMILES 'dsafsdf' for input: ': 194: [09:22:46] SMILES Parse Error: dsafsdfsyntax error Parse Error: 194: SMILESSMILES' Parse Error: syntax errorFailed parsing SMILES 'dsafsdf' for input: ' while parsing: dsafsdf while parsing: Parse Error: [09:22:46] dsafsdf 194: ' 194: SMILESFailed parsing SMILES 'dsafsdf'dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^[09:22:46] 194: dsafsdf 194: [09:22:46] ^[09:22:46] 194: Parse Error: syntax error[09:22:46] while parsing: dsafsdf 194: '[09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: for input: 'dsafsdf' 194: [09:22:46] SMILES 194: 194: [09:22:46] [09:22:46] SMILES Parse Error: check for mistakes around position dsafsdf^ Parse Error: 194: 194: 1syntax error: 194: 194: [09:22:46] [09:22:46] [09:22:46] ^ 194: [09:22:46] SMILES while parsing: Parse Error: Failed parsing SMILES 'dsafsdf' for input: '[09:22:46] [09:22:46] SMILESSMILESSMILES[09:22:46] [09:22:46] SMILESdsafsdf[09:22:46] [09:22:46] SMILESSMILES Parse Error: Parse Error: Parse Error: Failed parsing SMILES 'dsafsdf'SMILES for input: 'dsafsdfdsafsdfSMILESFailed parsing SMILES 'dsafsdf'syntax error for input: ' Parse Error: Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] ' 194: ' 194: while parsing: Parse Error: ^[09:22:46] 194: dsafsdf 194: [09:22:46] 194: Parse Error: dsafsdf Parse Error: SMILES[09:22:46] 194: [09:22:46] SMILESFailed parsing SMILES 'dsafsdf'SMILESFailed parsing SMILES 'dsafsdf'syntax error for input: ' while parsing: dsafsdfdsafsdf for input: '[09:22:46] Parse Error: check for mistakes around position dsafsdfSMILES Parse Error: SMILES^ 194: [09:22:46] [09:22:46] 'SMILES 194: Parse Error: check for mistakes around position 1syntax error1 Parse Error: :' 194: syntax errordsafsdf:' 194: 194: syntax errorSMILES 194: while parsing: [09:22:46] 194: dsafsdf 194: [09:22:46] Parse Error: dsafsdf[09:22:46] 194: [09:22:46] syntax error[09:22:46] while parsing: while parsing: dsafsdf^ while parsing: Parse Error: Failed parsing SMILES 'dsafsdf'[09:22:46] 194: dsafsdf Parse Error: 194: [09:22:46] [09:22:46] dsafsdfSMILESdsafsdfSMILES 194: for input: '[09:22:46] dsafsdfSMILES 194: 194: Failed parsing SMILES 'dsafsdf' Parse Error: check for mistakes around position [09:22:46] [09:22:46] 1SMILESSMILES[09:22:46] for input: ' Parse Error: SMILESSMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: :[09:22:46] ^ 194: Parse Error: Failed parsing SMILES 'dsafsdf' for input: '^[09:22:46] SMILES'SMILES Parse Error: [09:22:46] syntax errorSMILES Parse Error: check for mistakes around position Parse Error: check for mistakes around position 1 194: : 194: dsafsdfsyntax errordsafsdf Parse Error: [09:22:46] 'SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: ' while parsing: while parsing: 194: syntax error Parse Error: check for mistakes around position 194: dsafsdf Parse Error: ''dsafsdf 194: 194: dsafsdf[09:22:46] 194: 1[09:22:46] SMILES[09:22:46] Parse Error: check for mistakes around position Failed parsing SMILES 'dsafsdf'1 for input: ': 194: while parsing: dsafsdfSMILES 194: [09:22:46] ^ Parse Error: 194: 194: :1 194: :[09:22:46] 194: dsafsdf[09:22:46] dsafsdf' 194: 194: [09:22:46] [09:22:46] [09:22:46] dsafsdfdsafsdf[09:22:46] 194: SMILESSMILES Parse Error: Failed parsing SMILES 'dsafsdf' Parse Error: syntax errordsafsdf 194: 194: [09:22:46] ^[09:22:46] SMILES[09:22:46] SMILES Parse Error: 194: dsafsdfFailed parsing SMILES 'dsafsdf'[09:22:46] 194: Parse Error: check for mistakes around position syntax error for input: ' while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: ^[09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: 194: [09:22:46] 1[09:22:46] SMILESdsafsdf' 194: 194: [09:22:46] for input: '[09:22:46] [09:22:46] dsafsdf^ 194: ^dsafsdf: 194: [09:22:46] '[09:22:46] 194: Parse Error: [09:22:46] Failed parsing SMILES 'dsafsdf'SMILES 194: [09:22:46] Parse Error: check for mistakes around position dsafsdf^ 194: [09:22:46] ^ 194: 194: [09:22:46] for input: 'SMILESdsafsdf 194: ' 194: SMILES[09:22:46] SMILES Parse Error: Parse Error: [09:22:46] 1^ 194: Failed parsing SMILES 'dsafsdf'SMILES Parse Error: Parse Error: [09:22:46] Failed parsing SMILES 'dsafsdf'SMILESFailed parsing SMILES 'dsafsdf'Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf for input: 'dsafsdf[09:22:46] ': for input: 'SMILES[09:22:46] 194: Parse Error: dsafsdf' 194: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 194: SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: ' for input: ' Parse Error: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1Failed parsing SMILES 'dsafsdf'[09:22:46] 'SMILES[09:22:46] dsafsdf'dsafsdf 194: ': 194: Parse Error: 194: syntax error1 for input: 'dsafsdf 194: dsafsdf' 194: 194: [09:22:46] while parsing: ^: 194: dsafsdf 194: [09:22:46] 194: SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf'[09:22:46] [09:22:46] dsafsdf 194: for input: 'SMILES[09:22:46] Parse Error: dsafsdf' 194: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf'[09:22:46] dsafsdf 194: ^ 194: [09:22:46] ^ 194: [09:22:46] 194: SMILES Parse Error: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] SMILES Parse Error: syntax error while parsing: dsafsdf 194: [09:22:46] SMILES Parse Error: check for mistakes around position 1: 194: [09:22:46] dsafsdf 194: [09:22:46] ^ 194: [09:22:46] SMILES Parse Error: Failed parsing SMILES 'dsafsdf' for input: 'dsafsdf' 194: [09:22:46] Pattern fingerprints for tautomersearch aren't tautomer fingerprints, ignoring... 194: =============================================================================== 194: All tests passed (36654 assertions in 15 test cases) 194: 192/254 Test #194: substructLibraryTest ................... Passed 2.41 sec test 198 Start 198: testRGroupDecompInternals 198: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/testRGroupDecompInternals 198: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition 198: Test timeout computed to be: 7200 198: Randomness seeded to: 1961082848 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: [09:22:46] WARNING: not removing hydrogen atom with dummy atom neighbors 198: =============================================================================== 198: All tests passed (26 assertions in 3 test cases) 198: 193/254 Test #198: testRGroupDecompInternals .............. Passed 0.03 sec test 199 Start 199: rgroupCatchTests 199: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/rgroupCatchTests 199: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition 199: Test timeout computed to be: 7200 196: ............... 196: ---------------------------------------------------------------------- 196: Ran 21 tests in 2.206s 196: 196: OK 196: Testing atom rings 196: testing bond rings 196: searching atom rings 196: searching bond rings 196: done 194/254 Test #196: pySubstructLibrary ..................... Passed 2.35 sec test 200 Start 200: pyRGroupDecomposition 200: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/RGroupDecomposition/Wrap/test_rgroups.py" 200: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap 200: Test timeout computed to be: 7200 199: Randomness seeded to: 4119347596 199: =============================================================================== 199: All tests passed (1485 assertions in 15 test cases) 199: 195/254 Test #199: rgroupCatchTests ....................... Passed 0.25 sec test 201 Start 201: determineBondsCatchTest 201: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds/determineBondsCatchTest 201: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds 201: Test timeout computed to be: 7200 201: Randomness seeded to: 2861486064 201: [09:22:47] Interrupted, cancelling determine Bond Orders 201: =============================================================================== 201: All tests passed (5192 assertions in 12 test cases) 201: 196/254 Test #201: determineBondsCatchTest ................ Passed 0.25 sec test 202 Start 202: pyDetermineBonds 202: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/DetermineBonds/Wrap/testDetermineBonds.py" 202: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/DetermineBonds/Wrap 202: Test timeout computed to be: 7200 202: .s... 202: ---------------------------------------------------------------------- 202: Ran 5 tests in 0.028s 202: 202: OK (skipped=1) 183: .[09:22:47] Timed out. 183: [09:22:47] Timed out. 197/254 Test #202: pyDetermineBonds ....................... Passed 0.14 sec test 203 Start 203: molInterchangeTest1 203: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange/molInterchangeTest1 203: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange 203: Test timeout computed to be: 7200 183: . 183: ---------------------------------------------------------------------- 183: Ran 10 tests in 21.908s 183: 183: OK 203: [09:22:47] test1: basics 203: [09:22:47] done 203: [09:22:47] test2: basic writing 203: {"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":"2026.03.2"}]}]} 203: {"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":"2026.03.2","cipRanks":[3,1,4,2,0],"cipCodes":[[1,"S"]]}]}]} 203: {"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":[{"atoms":[0,1]},{"bo":2,"atoms":[1,2]},{"atoms":[2,3]},{"bo":2,"atoms":[3,4]},{"atoms":[4,5]},{"bo":2,"atoms":[5,0]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2026.03.2","aromaticAtoms":[0,1,2,3,4,5],"aromaticBonds":[0,1,2,3,4,5],"atomRings":[[0,5,4,3,2,1]]}]}]} 203: {"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":"2026.03.2","aromaticAtoms":[2,3,5,6,8,9],"aromaticBonds":[2,4,5,7,8,9],"atomRings":[[2,9,8,6,5,3]]}]}]} 203: [09:22:47] done 203: [09:22:47] test3: writing conformers 203: {"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":[[-1.1988E0,-4.52E-2],[-3.332E-1,4.556E-1],[1.66E-1,1.322E0],[5.332E-1,-4.38E-2],[-2.0652E0,4.542E-1],[-8.34E-1,1.3212E0]]},{"dim":3,"coords":[[9.554E-1,-3.743E-1,-4.679E-1],[-3.616E-1,-1.311E-1,-7.95E-2],[-5.097E-1,1.6256E0,1.706E-1],[-5.779E-1,-7.92E-1,1.1042E0],[1.5277E0,1.064E-1,1.628E-1],[-1.0339E0,-4.346E-1,-8.902E-1]]}],"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2026.03.2","cipCodes":[[1,"S"]]},{"name":"partialCharges","generator":"RDKit","formatVersion":10,"generatorVersion":"2026.03.2","values":[-3.52E-1,2.73E-1,-5.5E-2,-1.98E-1,2.15E-1,1.17E-1]}]}]} 203: [09:22:47] done 203: [09:22:47] test4: writing properties 203: {"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":1.2E0},"extensions":[{"name":"rdkitRepresentation","formatVersion":2,"toolkitVersion":"2026.03.2"}]}]} 203: [09:22:47] done 203: [09:22:47] test5: writing partial charges 203: {"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":"2026.03.2"},{"name":"partialCharges","generator":"RDKit","formatVersion":10,"generatorVersion":"2026.03.2","values":[5E-1,-5E-1]}]}]} 203: [09:22:47] testing parse options 203: [09:22:47] done 203: [09:22:47] testing github #2046: CIPRank values from JSONDataToMols are not unsigned 203: {"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":"2026.03.2","cipRanks":[1,0,2,4,3,5],"cipCodes":[[4,"S"]],"atomRings":[[0,1,2,3,4]]}]}]} 203: [09:22:47] done 203: [09:22:47] testing 'either' stereochemistry 203: [09:22:47] done 198/254 Test #203: molInterchangeTest1 .................... Passed 0.02 sec test 204 Start 204: molInterchangeCatchTest 204: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange/molInterchangeCatchTest 204: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange 204: Test timeout computed to be: 7200 204: Randomness seeded to: 3553878760 204: [09:22:47] unrecognized bond type 12 set to zero while writing 204: [09:22:47] unrecognized bond type 0 set to zero while writing 204: [09:22:47] Warning: Could not convert property DATAFIELDS to a recognized type. Skipping it. 204: [09:22:47] Warning: Could not convert property DATAFIELDS to a recognized type. Skipping it. 204: [09:22:47] Warning: Could not convert property DATAFIELDS to a recognized type. Skipping it. 204: =============================================================================== 204: All tests passed (147 assertions in 8 test cases) 204: 199/254 Test #204: molInterchangeCatchTest ................ Passed 0.03 sec test 205 Start 205: pyMolInterchange 205: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInterchange/Wrap/testMolInterchange.py" 205: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInterchange/Wrap 205: Test timeout computed to be: 7200 200/254 Test #183: pySynthonSpaceSearch ................... Passed 22.10 sec test 206 Start 206: testSLNParse 206: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse/testSLNParse 206: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse 206: Test timeout computed to be: 7200 206: Atoms: 206: 0 6 C chg: 1 deg: 5 exp: N/A imp: 0 hyb: 206: 1 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 206: 2 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 206: 3 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 206: 4 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 206: 5 1 H chg: 0 deg: 1 exp: N/A imp: N/A hyb: 206: Bonds: 206: 0 0->1 order: 1 206: 1 0->2 order: 1 206: 2 0->3 order: 1 206: 3 0->4 order: 1 206: 4 0->5 order: 1 206: [09:22:47] SLN Parse Error: syntax error while parsing: CH4[I=13] 206: [09:22:47] Failed parsing SLN 'CH4[I=13]' 206: [09:22:47] SLN Parser error: Atom ID 1 appears *after* its ring closure. 206: [09:22:47] SLN Parser error: Ring closure 1 does not have a corresponding opener. 206: [09:22:47] SLN Parse Error: syntax error while parsing: CH2(C@1H2)CH2(CH2CH2C[1]H2) 206: [09:22:47] Failed parsing SLN 'CH2(C@1H2)CH2(CH2CH2C[1]H2)' 206: [09:22:47] SLN Parse Error: syntax error while parsing: CH2(CH2[1])CH2(CH2CH2CH2@1) 206: [09:22:47] Failed parsing SLN 'CH2(CH2[1])CH2(CH2CH2CH2@1)' 206: [09:22:47] SLN Parse Error: syntax error while parsing: CH4 fff 206: [09:22:47] Failed parsing SLN 'CH4 fff' 206: [09:22:47] SLN Parse Error: syntax error while parsing: C[charge=+1] foo 206: [09:22:47] Failed parsing SLN 'C[charge=+1] foo' 206: [09:22:47] Query property 'is' ignored on non-query atom 206: [09:22:47] Query property 'is' ignored on non-query atom 201/254 Test #206: testSLNParse ........................... Passed 0.02 sec test 207 Start 207: pySLNParse 207: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/SLNParse/Wrap/testSLN.py" 207: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse/Wrap 207: Test timeout computed to be: 7200 205: .. 205: ---------------------------------------------------------------------- 205: Ran 2 tests in 0.005s 205: 205: OK 202/254 Test #205: pyMolInterchange ....................... Passed 0.10 sec test 208 Start 208: pyGraphMolWrap 208: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/rough_test.py" 208: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap 208: Test timeout computed to be: 7200 207: .. 207: ---------------------------------------------------------------------- 207: Ran 2 tests in 0.005s 207: 207: OK 203/254 Test #207: pySLNParse ............................. Passed 0.11 sec test 209 Start 209: pyTestConformerWrap 209: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/testConformer.py" 209: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap 209: Test timeout computed to be: 7200 200: .................... 200: ---------------------------------------------------------------------- 200: Ran 20 tests in 0.718s 200: 200: OK 204/254 Test #200: pyRGroupDecomposition .................. Passed 0.83 sec test 210 Start 210: pyTestTrajectory 210: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/testTrajectory.py" 210: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap 210: Test timeout computed to be: 7200 209: ...... 209: ---------------------------------------------------------------------- 209: Ran 6 tests in 0.059s 209: 209: OK 205/254 Test #209: pyTestConformerWrap .................... Passed 0.16 sec test 211 Start 211: pyTestSGroups 211: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/testSGroups.py" 211: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap 211: Test timeout computed to be: 7200 210: [09:22:47] 210: 210: **** 210: Pre-condition Violation 210: from must be < size() 210: Violation occurred on line 91 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 210: Failed Expression: from < static_cast(size()) 210: ---------- 210: Stacktrace: 210: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 2# RDKit::Trajectory::addConformersToMol(RDKit::ROMol&, int, int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitTrajectory.so.1 210: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 210: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 11# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 12# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 13# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 14# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 15# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 20# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 21# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 22# _PyObject_MakeTpCall in /usr/bin/python3 210: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 24# 0x00000000001DD0A7 in /usr/bin/python3 210: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 26# 0x00000000002A967B in /usr/bin/python3 210: 27# 0x000000000024191D in /usr/bin/python3 210: 28# _PyObject_MakeTpCall in /usr/bin/python3 210: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 30# 0x00000000001DD0A7 in /usr/bin/python3 210: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 32# 0x00000000002A967B in /usr/bin/python3 210: 33# 0x000000000024191D in /usr/bin/python3 210: 34# _PyObject_MakeTpCall in /usr/bin/python3 210: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 36# 0x00000000001DD0A7 in /usr/bin/python3 210: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 38# 0x00000000002A967B in /usr/bin/python3 210: 39# 0x000000000024191D in /usr/bin/python3 210: 40# _PyObject_MakeTpCall in /usr/bin/python3 210: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 42# 0x00000000001AE9E2 in /usr/bin/python3 210: 43# _PyObject_MakeTpCall in /usr/bin/python3 210: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 45# PyEval_EvalCode in /usr/bin/python3 210: 46# 0x00000000002C1C44 in /usr/bin/python3 210: 47# 0x00000000002BEBDF in /usr/bin/python3 210: 48# 0x00000000002D0454 in /usr/bin/python3 210: 49# 0x00000000002CFEE9 in /usr/bin/python3 210: 50# 0x00000000002CFD1E in /usr/bin/python3 210: 51# Py_RunMain in /usr/bin/python3 210: 52# Py_BytesMain in /usr/bin/python3 210: 53# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 54# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 55# _start in /usr/bin/python3 210: ---------- 210: **** 210: 210: .[09:22:47] 210: 210: **** 210: Pre-condition Violation 210: from must be < size() 210: Violation occurred on line 91 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 210: Failed Expression: from < static_cast(size()) 210: ---------- 210: Stacktrace: 210: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 2# RDKit::Trajectory::addConformersToMol(RDKit::ROMol&, int, int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitTrajectory.so.1 210: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 210: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 11# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 12# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 13# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 14# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 15# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 20# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 21# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 22# _PyObject_MakeTpCall in /usr/bin/python3 210: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 24# 0x00000000001DD0A7 in /usr/bin/python3 210: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 26# 0x00000000002A967B in /usr/bin/python3 210: 27# 0x000000000024191D in /usr/bin/python3 210: 28# _PyObject_MakeTpCall in /usr/bin/python3 210: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 30# 0x00000000001DD0A7 in /usr/bin/python3 210: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 32# 0x00000000002A967B in /usr/bin/python3 210: 33# 0x000000000024191D in /usr/bin/python3 210: 34# _PyObject_MakeTpCall in /usr/bin/python3 210: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 36# 0x00000000001DD0A7 in /usr/bin/python3 210: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 38# 0x00000000002A967B in /usr/bin/python3 210: 39# 0x000000000024191D in /usr/bin/python3 210: 40# _PyObject_MakeTpCall in /usr/bin/python3 210: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 42# 0x00000000001AE9E2 in /usr/bin/python3 210: 43# _PyObject_MakeTpCall in /usr/bin/python3 210: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 45# PyEval_EvalCode in /usr/bin/python3 210: 46# 0x00000000002C1C44 in /usr/bin/python3 210: 47# 0x00000000002BEBDF in /usr/bin/python3 210: 48# 0x00000000002D0454 in /usr/bin/python3 210: 49# 0x00000000002CFEE9 in /usr/bin/python3 210: 50# 0x00000000002CFD1E in /usr/bin/python3 210: 51# Py_RunMain in /usr/bin/python3 210: 52# Py_BytesMain in /usr/bin/python3 210: 53# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 54# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 55# _start in /usr/bin/python3 210: ---------- 210: **** 210: 208: ..............[09:22:47] SMARTS Parse Error: syntax error while parsing: fiib 208: [09:22:47] SMARTS Parse Error: check for mistakes around position 1: 208: [09:22:47] fiib 208: [09:22:47] ^ 208: [09:22:47] SMARTS Parse Error: Failed parsing SMARTS 'fiib' for input: 'fiib' 208: ....[09:22:47] ERROR: Problems encountered parsing data fields 208: [09:22:47] ERROR: moving to the beginning of the next molecule 208: [09:22:47] ERROR: Problems encountered parsing data fields 208: [09:22:47] ERROR: moving to the beginning of the next molecule 208: [09:22:47] Spurious data before the first property will be ignored 208: [09:22:47] Property will be truncated after the first blank line 208: [09:22:47] Property will be truncated after the first blank line 208: [09:22:47] Property will be truncated after the first blank line 208: [09:22:47] ERROR: Problems encountered parsing data fields 208: [09:22:47] ERROR: moving to the beginning of the next molecule 208: [09:22:47] ERROR: Problems encountered parsing data fields 208: [09:22:47] ERROR: moving to the beginning of the next molecule 208: [09:22:47] Spurious data before the first property will be ignored 208: [09:22:47] Property will be truncated after the first blank line 208: [09:22:47] Property will be truncated after the first blank line 208: [09:22:47] Property will be truncated after the first blank line 208: [09:22:47] ERROR: Problems encountered parsing data fields 208: [09:22:47] ERROR: moving to the beginning of the next molecule 208: [09:22:47] Property will be truncated after the first blank line 208: [09:22:47] ERROR: Problems encountered parsing data fields 208: [09:22:47] ERROR: moving to the beginning of the next molecule 208: [09:22:47] Property will be truncated after the first blank line 208: .[09:22:47] SMILES Parse Error: syntax error while parsing: fail 208: [09:22:47] SMILES Parse Error: check for mistakes around position 1: 208: [09:22:47] fail 208: [09:22:47] ^ 208: [09:22:47] SMILES Parse Error: Failed parsing SMILES 'fail' for input: 'fail' 208: [09:22:47] ERROR: Smiles parse error on line 2 208: [09:22:47] ERROR: Cannot create molecule from : 'fail' 208: >>> This may result in an infinite loop. It should finish almost instantly 208: <<< OK, it finished. 211: ............. 211: ---------------------------------------------------------------------- 211: Ran 13 tests in 0.009s 211: 211: OK 211: Testing SubstanceGroups wrapper 208: ............[09:22:47] Explicit valence for atom # 1 C, 5, is greater than permitted 208: ......[09:22:47] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 208: [09:22:47] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 208: [09:22:47] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 208: [09:22:47] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 206/254 Test #211: pyTestSGroups .......................... Passed 0.10 sec test 212 Start 212: pyTestSCSR 212: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/testSCSR.py" 212: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap 212: Test timeout computed to be: 7200 208: .........[09:22:47] non-ring atom 0 marked aromatic 208: [09:22:47] non-ring atom 0 marked aromatic 208: [09:22:47] 208: 208: **** 208: Range Error 208: idx 208: Violation occurred on line 202 in file ./Code/GraphMol/ROMol.cpp 208: Failed Expression: 12 < 6 208: ---------- 208: Stacktrace: 208: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 208: 3# RDKit::RWMol::removeAtom(unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 208: 4# 0x0000000000287A2A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 208: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 208: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 208: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 208: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 17# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 18# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 19# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 20# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 21# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 25# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 26# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 27# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 28# _PyObject_MakeTpCall in /usr/bin/python3 208: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 30# 0x00000000001DD0A7 in /usr/bin/python3 208: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 32# 0x00000000002A967B in /usr/bin/python3 208: 33# 0x000000000024191D in /usr/bin/python3 208: 34# _PyObject_MakeTpCall in /usr/bin/python3 208: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 36# 0x00000000001DD0A7 in /usr/bin/python3 208: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 38# 0x00000000002A967B in /usr/bin/python3 208: 39# 0x000000000024191D in /usr/bin/python3 208: 40# _PyObject_MakeTpCall in /usr/bin/python3 208: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 42# 0x00000000001DD0A7 in /usr/bin/python3 208: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 44# 0x00000000002A967B in /usr/bin/python3 208: 45# 0x000000000024191D in /usr/bin/python3 208: 46# _PyObject_MakeTpCall in /usr/bin/python3 208: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 48# 0x00000000001AE9E2 in /usr/bin/python3 208: 49# _PyObject_MakeTpCall in /usr/bin/python3 208: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 51# PyEval_EvalCode in /usr/bin/python3 208: 52# 0x00000000002C1C44 in /usr/bin/python3 208: 53# 0x00000000002BEBDF in /usr/bin/python3 208: 54# 0x00000000002D0454 in /usr/bin/python3 208: 55# 0x00000000002CFEE9 in /usr/bin/python3 208: 56# 0x00000000002CFD1E in /usr/bin/python3 208: 57# Py_RunMain in /usr/bin/python3 208: 58# Py_BytesMain in /usr/bin/python3 208: 59# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 60# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 61# _start in /usr/bin/python3 208: ---------- 208: **** 208: 208: [09:22:47] non-ring atom 0 marked aromatic 208: [09:22:47] non-ring atom 0 marked aromatic 208: [09:22:47] 208: 208: **** 208: Range Error 208: idx 208: Violation occurred on line 202 in file ./Code/GraphMol/ROMol.cpp 208: Failed Expression: 12 < 6 208: ---------- 208: Stacktrace: 208: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 208: 3# RDKit::RWMol::removeAtom(unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 208: 4# 0x0000000000287A2A in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 208: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 208: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 208: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 208: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 17# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 18# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 19# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 20# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 21# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 25# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 26# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 27# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 28# _PyObject_MakeTpCall in /usr/bin/python3 208: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 30# 0x00000000001DD0A7 in /usr/bin/python3 208: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 32# 0x00000000002A967B in /usr/bin/python3 208: 33# 0x000000000024191D in /usr/bin/python3 208: 34# _PyObject_MakeTpCall in /usr/bin/python3 208: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 36# 0x00000000001DD0A7 in /usr/bin/python3 208: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 38# 0x00000000002A967B in /usr/bin/python3 208: 39# 0x000000000024191D in /usr/bin/python3 208: 40# _PyObject_MakeTpCall in /usr/bin/python3 208: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 42# 0x00000000001DD0A7 in /usr/bin/python3 208: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 44# 0x00000000002A967B in /usr/bin/python3 208: 45# 0x000000000024191D in /usr/bin/python3 208: 46# _PyObject_MakeTpCall in /usr/bin/python3 208: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 48# 0x00000000001AE9E2 in /usr/bin/python3 208: 49# _PyObject_MakeTpCall in /usr/bin/python3 208: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 51# PyEval_EvalCode in /usr/bin/python3 208: 52# 0x00000000002C1C44 in /usr/bin/python3 208: 53# 0x00000000002BEBDF in /usr/bin/python3 208: 54# 0x00000000002D0454 in /usr/bin/python3 208: 55# 0x00000000002CFEE9 in /usr/bin/python3 208: 56# 0x00000000002CFD1E in /usr/bin/python3 208: 57# Py_RunMain in /usr/bin/python3 208: 58# Py_BytesMain in /usr/bin/python3 208: 59# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 60# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 61# _start in /usr/bin/python3 208: ---------- 208: **** 208: 208: ...............[09:22:47] 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. 208: [09:22:47] 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. 210: .[09:22:47] 210: 210: **** 208: ..............[09:22:47] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 208: [09:22:47] Explicit valence for atom # 1 C, 5, is greater than permitted 210: Range Error 210: snapshotNum 210: Violation occurred on line 71 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 210: Failed Expression: 0 < 0 210: ---------- 210: Stacktrace: 210: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 2# RDKit::Trajectory::getSnapshot(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitTrajectory.so.1 210: 3# RDKit::getSnapshot_wrap(RDKit::Trajectory*, unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 4# boost::python::objects::caller_py_function_impl, boost::mpl::vector3 > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 210: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 12# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 13# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 14# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 15# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 16# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 20# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 21# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 22# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 23# _PyObject_MakeTpCall in /usr/bin/python3 210: 24# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 25# 0x00000000001DD0A7 in /usr/bin/python3 210: 26# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 27# 0x00000000002A967B in /usr/bin/python3 210: 28# 0x000000000024191D in /usr/bin/python3 210: 29# _PyObject_MakeTpCall in /usr/bin/python3 210: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 31# 0x00000000001DD0A7 in /usr/bin/python3 210: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 33# 0x00000000002A967B in /usr/bin/python3 210: 34# 0x000000000024191D in /usr/bin/python3 210: 35# _PyObject_MakeTpCall in /usr/bin/python3 210: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 37# 0x00000000001DD0A7 in /usr/bin/python3 210: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 39# 0x00000000002A967B in /usr/bin/python3 210: 40# 0x000000000024191D in /usr/bin/python3 210: 41# _PyObject_MakeTpCall in /usr/bin/python3 210: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 43# 0x00000000001AE9E2 in /usr/bin/python3 210: 44# _PyObject_MakeTpCall in /usr/bin/python3 210: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 46# PyEval_EvalCode in /usr/bin/python3 210: 47# 0x00000000002C1C44 in /usr/bin/python3 210: 48# 0x00000000002BEBDF in /usr/bin/python3 210: 49# 0x00000000002D0454 in /usr/bin/python3 210: 50# 0x00000000002CFEE9 in /usr/bin/python3 210: 51# 0x00000000002CFD1E in /usr/bin/python3 210: 52# Py_RunMain in /usr/bin/python3 210: 53# Py_BytesMain in /usr/bin/python3 210: 54# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 55# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 56# _start in /usr/bin/python3 210: ---------- 210: **** 210: 210: .[09:22:47] 210: 210: **** 210: Pre-condition Violation 210: The trajectory must have dimension == 3 210: Violation occurred on line 113 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 210: Failed Expression: traj.dimension() == 3 210: ---------- 210: Stacktrace: 210: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 2# RDKit::readAmberTrajectory(std::__cxx11::basic_string, std::allocator > const&, RDKit::Trajectory&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitTrajectory.so.1 210: 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-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 210: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 11# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 12# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 13# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 14# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 15# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 20# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 21# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 22# _PyObject_MakeTpCall in /usr/bin/python3 210: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 24# 0x00000000001DD0A7 in /usr/bin/python3 210: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 26# 0x00000000002A967B in /usr/bin/python3 210: 27# 0x000000000024191D in /usr/bin/python3 210: 28# _PyObject_MakeTpCall in /usr/bin/python3 210: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 30# 0x00000000001DD0A7 in /usr/bin/python3 210: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 32# 0x00000000002A967B in /usr/bin/python3 210: 33# 0x000000000024191D in /usr/bin/python3 210: 34# _PyObject_MakeTpCall in /usr/bin/python3 210: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 36# 0x00000000001DD0A7 in /usr/bin/python3 210: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 38# 0x00000000002A967B in /usr/bin/python3 210: 39# 0x000000000024191D in /usr/bin/python3 210: 40# _PyObject_MakeTpCall in /usr/bin/python3 210: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 42# 0x00000000001AE9E2 in /usr/bin/python3 210: 43# _PyObject_MakeTpCall in /usr/bin/python3 210: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 45# PyEval_EvalCode in /usr/bin/python3 210: 46# 0x00000000002C1C44 in /usr/bin/python3 210: 47# 0x00000000002BEBDF in /usr/bin/python3 210: 48# 0x00000000002D0454 in /usr/bin/python3 210: 49# 0x00000000002CFEE9 in /usr/bin/python3 210: 50# 0x00000000002CFD1E in /usr/bin/python3 210: 51# Py_RunMain in /usr/bin/python3 210: 52# Py_BytesMain in /usr/bin/python3 210: 53# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 54# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 55# _start in /usr/bin/python3 210: ---------- 210: **** 210: 210: ..[09:22:47] 210: 210: **** 210: Pre-condition Violation 210: The trajectory must have dimension == 3 210: Violation occurred on line 154 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 210: Failed Expression: traj.dimension() == 3 210: ---------- 210: Stacktrace: 210: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 2# RDKit::readGromosTrajectory(std::__cxx11::basic_string, std::allocator > const&, RDKit::Trajectory&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitTrajectory.so.1 210: 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-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 210: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 11# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 12# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 13# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 14# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 15# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 20# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 21# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 22# _PyObject_MakeTpCall in /usr/bin/python3 210: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 24# 0x00000000001DD0A7 in /usr/bin/python3 210: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 26# 0x00000000002A967B in /usr/bin/python3 210: 27# 0x000000000024191D in /usr/bin/python3 210: 28# _PyObject_MakeTpCall in /usr/bin/python3 210: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 30# 0x00000000001DD0A7 in /usr/bin/python3 210: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 32# 0x00000000002A967B in /usr/bin/python3 210: 33# 0x000000000024191D in /usr/bin/python3 210: 34# _PyObject_MakeTpCall in /usr/bin/python3 210: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 36# 0x00000000001DD0A7 in /usr/bin/python3 210: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 38# 0x00000000002A967B in /usr/bin/python3 210: 39# 0x000000000024191D in /usr/bin/python3 210: 40# _PyObject_MakeTpCall in /usr/bin/python3 210: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 42# 0x00000000001AE9E2 in /usr/bin/python3 210: 43# _PyObject_MakeTpCall in /usr/bin/python3 210: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 45# PyEval_EvalCode in /usr/bin/python3 210: 46# 0x00000000002C1C44 in /usr/bin/python3 210: 47# 0x00000000002BEBDF in /usr/bin/python3 210: 48# 0x00000000002D0454 in /usr/bin/python3 210: 49# 0x00000000002CFEE9 in /usr/bin/python3 210: 50# 0x00000000002CFD1E in /usr/bin/python3 210: 51# Py_RunMain in /usr/bin/python3 210: 52# Py_BytesMain in /usr/bin/python3 210: 53# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 54# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 55# _start in /usr/bin/python3 210: ---------- 210: **** 210: 210: .[09:22:47] 210: 210: **** 210: Pre-condition Violation 210: d_pos must not be NULL 210: Violation occurred on line 23 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 210: Failed Expression: d_pos 210: ---------- 210: Stacktrace: 210: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitTrajectory.so.1 210: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 210: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 11# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 12# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 13# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 14# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 15# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 20# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 21# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 22# _PyObject_MakeTpCall in /usr/bin/python3 210: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 24# 0x00000000001DD0A7 in /usr/bin/python3 210: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 26# 0x00000000002A967B in /usr/bin/python3 210: 27# 0x000000000024191D in /usr/bin/python3 210: 28# _PyObject_MakeTpCall in /usr/bin/python3 210: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 30# 0x00000000001DD0A7 in /usr/bin/python3 210: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 32# 0x00000000002A967B in /usr/bin/python3 210: 33# 0x000000000024191D in /usr/bin/python3 210: 34# _PyObject_MakeTpCall in /usr/bin/python3 210: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 36# 0x00000000001DD0A7 in /usr/bin/python3 210: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 38# 0x00000000002A967B in /usr/bin/python3 210: 39# 0x000000000024191D in /usr/bin/python3 210: 40# _PyObject_MakeTpCall in /usr/bin/python3 210: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 42# 0x00000000001AE9E2 in /usr/bin/python3 210: 43# _PyObject_MakeTpCall in /usr/bin/python3 210: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 45# PyEval_EvalCode in /usr/bin/python3 210: 46# 0x00000000002C1C44 in /usr/bin/python3 210: 47# 0x00000000002BEBDF in /usr/bin/python3 210: 48# 0x00000000002D0454 in /usr/bin/python3 210: 49# 0x00000000002CFEE9 in /usr/bin/python3 210: 50# 0x00000000002CFD1E in /usr/bin/python3 210: 51# Py_RunMain in /usr/bin/python3 210: 52# Py_BytesMain in /usr/bin/python3 210: 53# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 54# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 55# _start in /usr/bin/python3 210: ---------- 210: **** 210: 210: [09:22:47] 210: 210: **** 210: Pre-condition Violation 210: d_trajectory must not be NULL 210: Violation occurred on line 24 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 210: Failed Expression: d_trajectory 210: ---------- 210: Stacktrace: 210: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitTrajectory.so.1 210: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 210: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 11# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 12# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 13# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 14# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 15# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 20# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 21# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 22# _PyObject_MakeTpCall in /usr/bin/python3 210: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 24# 0x00000000001DD0A7 in /usr/bin/python3 210: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 26# 0x00000000002A967B in /usr/bin/python3 210: 27# 0x000000000024191D in /usr/bin/python3 210: 28# _PyObject_MakeTpCall in /usr/bin/python3 210: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 30# 0x00000000001DD0A7 in /usr/bin/python3 210: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 32# 0x00000000002A967B in /usr/bin/python3 210: 33# 0x000000000024191D in /usr/bin/python3 210: 34# _PyObject_MakeTpCall in /usr/bin/python3 210: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 36# 0x00000000001DD0A7 in /usr/bin/python3 210: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 38# 0x00000000002A967B in /usr/bin/python3 210: 39# 0x000000000024191D in /usr/bin/python3 210: 40# _PyObject_MakeTpCall in /usr/bin/python3 210: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 42# 0x00000000001AE9E2 in /usr/bin/python3 210: 43# _PyObject_MakeTpCall in /usr/bin/python3 210: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 45# PyEval_EvalCode in /usr/bin/python3 210: 46# 0x00000000002C1C44 in /usr/bin/python3 210: 47# 0x00000000002BEBDF in /usr/bin/python3 210: 48# 0x00000000002D0454 in /usr/bin/python3 210: 49# 0x00000000002CFEE9 in /usr/bin/python3 210: 50# 0x00000000002CFD1E in /usr/bin/python3 210: 51# Py_RunMain in /usr/bin/python3 210: 52# Py_BytesMain in /usr/bin/python3 210: 53# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 54# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 55# _start in /usr/bin/python3 210: ---------- 210: **** 210: 210: .[09:22:47] 210: 210: **** 212: ... 212: ---------------------------------------------------------------------- 212: Ran 3 tests in 0.011s 212: 212: OK 210: Range Error 210: snapshotNum 210: Violation occurred on line 71 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 210: Failed Expression: 5 < 5 210: ---------- 210: Stacktrace: 210: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 2# RDKit::Trajectory::getSnapshot(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitTrajectory.so.1 210: 3# RDKit::getSnapshot_wrap(RDKit::Trajectory*, unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 4# boost::python::objects::caller_py_function_impl, boost::mpl::vector3 > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 210: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 12# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 13# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 14# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 15# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 16# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 20# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 21# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 22# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 23# _PyObject_MakeTpCall in /usr/bin/python3 210: 24# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 25# 0x00000000001DD0A7 in /usr/bin/python3 210: 26# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 27# 0x00000000002A967B in /usr/bin/python3 210: 28# 0x000000000024191D in /usr/bin/python3 210: 29# _PyObject_MakeTpCall in /usr/bin/python3 210: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 31# 0x00000000001DD0A7 in /usr/bin/python3 210: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 33# 0x00000000002A967B in /usr/bin/python3 210: 34# 0x000000000024191D in /usr/bin/python3 210: 35# _PyObject_MakeTpCall in /usr/bin/python3 210: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 37# 0x00000000001DD0A7 in /usr/bin/python3 210: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 39# 0x00000000002A967B in /usr/bin/python3 210: 40# 0x000000000024191D in /usr/bin/python3 210: 41# _PyObject_MakeTpCall in /usr/bin/python3 210: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 43# 0x00000000001AE9E2 in /usr/bin/python3 210: 44# _PyObject_MakeTpCall in /usr/bin/python3 210: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 46# PyEval_EvalCode in /usr/bin/python3 210: 47# 0x00000000002C1C44 in /usr/bin/python3 210: 48# 0x00000000002BEBDF in /usr/bin/python3 210: 49# 0x00000000002D0454 in /usr/bin/python3 210: 50# 0x00000000002CFEE9 in /usr/bin/python3 210: 51# 0x00000000002CFD1E in /usr/bin/python3 210: 52# Py_RunMain in /usr/bin/python3 210: 53# Py_BytesMain in /usr/bin/python3 210: 54# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 55# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 56# _start in /usr/bin/python3 210: ---------- 210: **** 210: 210: [09:22:47] 210: 210: **** 210: Range Error 210: pointNum 210: Violation occurred on line 27 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 210: Failed Expression: 10 < 10 210: ---------- 210: Stacktrace: 210: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitTrajectory.so.1 210: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 210: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 11# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 12# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 13# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 14# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 15# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 20# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 21# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 22# _PyObject_MakeTpCall in /usr/bin/python3 210: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 24# 0x00000000001DD0A7 in /usr/bin/python3 210: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 26# 0x00000000002A967B in /usr/bin/python3 210: 27# 0x000000000024191D in /usr/bin/python3 210: 28# _PyObject_MakeTpCall in /usr/bin/python3 210: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 30# 0x00000000001DD0A7 in /usr/bin/python3 210: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 32# 0x00000000002A967B in /usr/bin/python3 210: 33# 0x000000000024191D in /usr/bin/python3 210: 34# _PyObject_MakeTpCall in /usr/bin/python3 210: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 36# 0x00000000001DD0A7 in /usr/bin/python3 210: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 38# 0x00000000002A967B in /usr/bin/python3 210: 39# 0x000000000024191D in /usr/bin/python3 210: 40# _PyObject_MakeTpCall in /usr/bin/python3 210: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 42# 0x00000000001AE9E2 in /usr/bin/python3 210: 43# _PyObject_MakeTpCall in /usr/bin/python3 210: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 45# PyEval_EvalCode in /usr/bin/python3 210: 46# 0x00000000002C1C44 in /usr/bin/python3 210: 47# 0x00000000002BEBDF in /usr/bin/python3 210: 48# 0x00000000002D0454 in /usr/bin/python3 210: 49# 0x00000000002CFEE9 in /usr/bin/python3 210: 50# 0x00000000002CFD1E in /usr/bin/python3 210: 51# Py_RunMain in /usr/bin/python3 210: 52# Py_BytesMain in /usr/bin/python3 210: 53# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 54# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 55# _start in /usr/bin/python3 210: ---------- 210: **** 210: 210: .[09:22:47] 210: 210: **** 210: Range Error 210: snapshotNum 210: Violation occurred on line 71 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 210: Failed Expression: 5 < 5 210: ---------- 210: Stacktrace: 210: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 2# RDKit::Trajectory::getSnapshot(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitTrajectory.so.1 210: 3# RDKit::getSnapshot_wrap(RDKit::Trajectory*, unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 4# boost::python::objects::caller_py_function_impl, boost::mpl::vector3 > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 210: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 12# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 13# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 14# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 15# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 16# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 20# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 21# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 22# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 23# _PyObject_MakeTpCall in /usr/bin/python3 210: 24# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 25# 0x00000000001DD0A7 in /usr/bin/python3 210: 26# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 27# 0x00000000002A967B in /usr/bin/python3 210: 28# 0x000000000024191D in /usr/bin/python3 210: 29# _PyObject_MakeTpCall in /usr/bin/python3 210: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 31# 0x00000000001DD0A7 in /usr/bin/python3 210: 32# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 33# 0x00000000002A967B in /usr/bin/python3 210: 34# 0x000000000024191D in /usr/bin/python3 210: 35# _PyObject_MakeTpCall in /usr/bin/python3 210: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 37# 0x00000000001DD0A7 in /usr/bin/python3 210: 38# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 39# 0x00000000002A967B in /usr/bin/python3 210: 40# 0x000000000024191D in /usr/bin/python3 210: 41# _PyObject_MakeTpCall in /usr/bin/python3 210: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 43# 0x00000000001AE9E2 in /usr/bin/python3 210: 44# _PyObject_MakeTpCall in /usr/bin/python3 210: 45# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 46# PyEval_EvalCode in /usr/bin/python3 210: 47# 0x00000000002C1C44 in /usr/bin/python3 210: 48# 0x00000000002BEBDF in /usr/bin/python3 210: 49# 0x00000000002D0454 in /usr/bin/python3 210: 50# 0x00000000002CFEE9 in /usr/bin/python3 210: 51# 0x00000000002CFD1E in /usr/bin/python3 210: 52# Py_RunMain in /usr/bin/python3 210: 53# Py_BytesMain in /usr/bin/python3 210: 54# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 55# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 56# _start in /usr/bin/python3 210: ---------- 210: **** 210: 210: [09:22:47] 210: 210: **** 207/254 Test #212: pyTestSCSR ............................. Passed 0.10 sec test 213 Start 213: pySubstructureMatch 213: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/testSubstructureMatch.py" 213: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap 213: Test timeout computed to be: 7200 210: Pre-condition Violation 210: d_dimension must be == 2 210: Violation occurred on line 25 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 210: Failed Expression: d_trajectory->dimension() == 2 210: ---------- 210: Stacktrace: 210: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitTrajectory.so.1 210: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 210: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 11# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 12# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 13# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 14# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 15# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 20# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 21# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 22# _PyObject_MakeTpCall in /usr/bin/python3 210: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 24# 0x00000000001DD0A7 in /usr/bin/python3 210: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 26# 0x00000000002A967B in /usr/bin/python3 210: 27# 0x000000000024191D in /usr/bin/python3 210: 28# _PyObject_MakeTpCall in /usr/bin/python3 210: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 30# 0x00000000001DD0A7 in /usr/bin/python3 210: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 32# 0x00000000002A967B in /usr/bin/python3 210: 33# 0x000000000024191D in /usr/bin/python3 210: 34# _PyObject_MakeTpCall in /usr/bin/python3 210: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 36# 0x00000000001DD0A7 in /usr/bin/python3 210: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 38# 0x00000000002A967B in /usr/bin/python3 210: 39# 0x000000000024191D in /usr/bin/python3 210: 40# _PyObject_MakeTpCall in /usr/bin/python3 210: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 42# 0x00000000001AE9E2 in /usr/bin/python3 210: 43# _PyObject_MakeTpCall in /usr/bin/python3 210: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 45# PyEval_EvalCode in /usr/bin/python3 210: 46# 0x00000000002C1C44 in /usr/bin/python3 210: 47# 0x00000000002BEBDF in /usr/bin/python3 210: 48# 0x00000000002D0454 in /usr/bin/python3 210: 49# 0x00000000002CFEE9 in /usr/bin/python3 210: 50# 0x00000000002CFD1E in /usr/bin/python3 210: 51# Py_RunMain in /usr/bin/python3 210: 52# Py_BytesMain in /usr/bin/python3 210: 53# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 54# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 55# _start in /usr/bin/python3 210: ---------- 210: **** 210: 210: [09:22:47] 210: 210: **** 210: Pre-condition Violation 210: d_dimension must be == 2 210: Violation occurred on line 25 in file ./Code/GraphMol/Trajectory/Trajectory.cpp 210: Failed Expression: d_trajectory->dimension() == 2 210: ---------- 210: Stacktrace: 210: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 210: 2# RDKit::Snapshot::getPoint2D(unsigned int) const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitTrajectory.so.1 210: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdtrajectory.so 210: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 210: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 210: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 11# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 12# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 13# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 14# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 15# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 210: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 17# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 18# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 19# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 210: 20# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 21# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 210: 22# _PyObject_MakeTpCall in /usr/bin/python3 210: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 24# 0x00000000001DD0A7 in /usr/bin/python3 210: 25# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 26# 0x00000000002A967B in /usr/bin/python3 210: 27# 0x000000000024191D in /usr/bin/python3 210: 28# _PyObject_MakeTpCall in /usr/bin/python3 210: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 30# 0x00000000001DD0A7 in /usr/bin/python3 210: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 32# 0x00000000002A967B in /usr/bin/python3 210: 33# 0x000000000024191D in /usr/bin/python3 210: 34# _PyObject_MakeTpCall in /usr/bin/python3 210: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 36# 0x00000000001DD0A7 in /usr/bin/python3 210: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 38# 0x00000000002A967B in /usr/bin/python3 210: 39# 0x000000000024191D in /usr/bin/python3 210: 40# _PyObject_MakeTpCall in /usr/bin/python3 210: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 42# 0x00000000001AE9E2 in /usr/bin/python3 210: 43# _PyObject_MakeTpCall in /usr/bin/python3 210: 44# _PyEval_EvalFrameDefault in /usr/bin/python3 210: 45# PyEval_EvalCode in /usr/bin/python3 210: 46# 0x00000000002C1C44 in /usr/bin/python3 210: 47# 0x00000000002BEBDF in /usr/bin/python3 210: 48# 0x00000000002D0454 in /usr/bin/python3 210: 49# 0x00000000002CFEE9 in /usr/bin/python3 210: 50# 0x00000000002CFD1E in /usr/bin/python3 210: 51# Py_RunMain in /usr/bin/python3 210: 52# Py_BytesMain in /usr/bin/python3 210: 53# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 54# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 210: 55# _start in /usr/bin/python3 210: ---------- 210: **** 210: 210: . 210: ---------------------------------------------------------------------- 210: Ran 9 tests in 0.201s 210: 210: OK 210: Testing Trajectory wrapper 208/254 Test #210: pyTestTrajectory ....................... Passed 0.32 sec test 214 Start 214: pyTestThreads 214: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/testThreads.py" 214: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap 214: Test timeout computed to be: 7200 213: ... 213: ---------------------------------------------------------------------- 213: Ran 3 tests in 0.005s 213: 213: OK 209/254 Test #213: pySubstructureMatch .................... Passed 0.10 sec test 215 Start 215: pyTestMultithreadedMolSupplier 215: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/testMultithreadedMolSupplier.py" 215: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap 215: Test timeout computed to be: 7200 215: .s... 215: ---------------------------------------------------------------------- 215: Ran 5 tests in 0.044s 215: 215: OK (skipped=1) 208: ............................[09:22:48] unable to set wavy bonds for double bonds: 3 208: ..............[09:22:48] 208: 208: **** 210/254 Test #215: pyTestMultithreadedMolSupplier ......... Passed 0.15 sec test 216 Start 216: pyTestPropertyLists 216: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/testPropertyLists.py" 216: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap 216: Test timeout computed to be: 7200 208: Range Error 208: idx 208: Violation occurred on line 202 in file ./Code/GraphMol/ROMol.cpp 208: Failed Expression: 6 < 5 208: ---------- 208: Stacktrace: 208: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 208: 3# RDKit::RWMol::removeAtom(unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 208: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 208: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 208: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 208: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 208: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 17# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 18# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 19# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 20# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 21# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 25# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 26# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 27# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 28# _PyObject_MakeTpCall in /usr/bin/python3 208: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 30# 0x00000000001DD0A7 in /usr/bin/python3 208: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 32# 0x00000000002A967B in /usr/bin/python3 208: 33# 0x000000000024191D in /usr/bin/python3 208: 34# _PyObject_MakeTpCall in /usr/bin/python3 208: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 36# 0x00000000001DD0A7 in /usr/bin/python3 208: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 38# 0x00000000002A967B in /usr/bin/python3 208: 39# 0x000000000024191D in /usr/bin/python3 208: 40# _PyObject_MakeTpCall in /usr/bin/python3 208: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 42# 0x00000000001DD0A7 in /usr/bin/python3 208: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 44# 0x00000000002A967B in /usr/bin/python3 208: 45# 0x000000000024191D in /usr/bin/python3 208: 46# _PyObject_MakeTpCall in /usr/bin/python3 208: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 48# 0x00000000001AE9E2 in /usr/bin/python3 208: 49# _PyObject_MakeTpCall in /usr/bin/python3 208: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 51# PyEval_EvalCode in /usr/bin/python3 208: 52# 0x00000000002C1C44 in /usr/bin/python3 208: 53# 0x00000000002BEBDF in /usr/bin/python3 208: 54# 0x00000000002D0454 in /usr/bin/python3 208: 55# 0x00000000002CFEE9 in /usr/bin/python3 208: 56# 0x00000000002CFD1E in /usr/bin/python3 208: 57# Py_RunMain in /usr/bin/python3 208: 58# Py_BytesMain in /usr/bin/python3 208: 59# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 60# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 61# _start in /usr/bin/python3 208: ---------- 208: **** 208: 216: ..... 216: ---------------------------------------------------------------------- 216: Ran 5 tests in 0.005s 216: 216: OK 211/254 Test #216: pyTestPropertyLists .................... Passed 0.14 sec test 217 Start 217: pyCDXMLTest 217: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/test_cdxml.py" 217: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap 217: Test timeout computed to be: 7200 212/254 Test #214: pyTestThreads .......................... Passed 0.37 sec test 218 Start 218: pySubsetTest 218: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/test_subset.py" 218: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap 218: Test timeout computed to be: 7200 217: .. 217: ---------------------------------------------------------------------- 217: Ran 2 tests in 0.000s 217: 217: OK 213/254 Test #218: pySubsetTest ........................... Passed 0.10 sec test 219 Start 219: pyTestLazyNumpy 219: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Wrap/test_lazy_numpy.py" 219: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Wrap 219: Test timeout computed to be: 7200 214/254 Test #217: pyCDXMLTest ............................ Passed 0.11 sec test 220 Start 220: molStandardizeTest 220: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/molStandardizeTest 220: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize 220: Test timeout computed to be: 7200 197: [09:22:48] Relabelling existing label 197: =============================================================================== 197: All tests passed (931 assertions in 53 test cases) 197: 215/254 Test #197: testRGroupDecomp ....................... Passed 4.17 sec test 221 Start 221: molNormalizeTest 221: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/molNormalizeTest 221: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize 221: Test timeout computed to be: 7200 208: ......................[09:22:48] Explicit valence for atom # 1 F, 2, is greater than permitted 208: [09:22:48] Explicit valence for atom # 6 F, 2, is greater than permitted 208: [09:22:48] Can't kekulize mol. Unkekulized atoms: 3 4 5 208: ..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| 208: CC/C=C/C(/C=C/CC)=C(CC)CO 208: CC/C=C\C(/C=C/CC)=C(CC)CO 208: CC/C=C\C(/C=C/CC)=C(CC)CO 208: CC/C=C\C(/C=C\CC)=C(CC)CO 208: CC/C=C\C(/C=C\CC)=C(CC)CO 208: 2 STEREOZ 208: 5 STEREOZ 208: CC/C=C/C(/C=C/CC)=C(CC)CO 208: 2 STEREOE 208: 5 STEREOE 208: CC/C=C\C(/C=C/CC)=C(CC)CO 208: 2 STEREOZ 208: 5 STEREOE 208: 8 STEREOANY 221: [09:22:48] Can't kekulize mol. Unkekulized atoms: 3 7 8 9 221: [09:22:48] Initializing Normalizer 221: [09:22:48] Running Normalizer 221: [09:22:48] Rule applied: BrokenazidetoN=N+=N- 221: [09:22:48] Initializing Normalizer 221: [09:22:48] Running Normalizer 221: [09:22:48] Initializing Normalizer 221: [09:22:48] Running Normalizer 216/254 Test #221: molNormalizeTest ....................... Passed 0.07 sec test 222 Start 222: molValidateTest 222: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/molValidateTest 222: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize 222: Test timeout computed to be: 7200 222: ERROR: [FeaturesValidation] Query atom 0 is not allowed 222: ERROR: [FeaturesValidation] Dummy atom 0 is not allowed 222: ERROR: [FeaturesValidation] Query bond 0 is not allowed 222: ERROR: [FeaturesValidation] Bond 0 of aromatic type is not allowed 222: ERROR: [FeaturesValidation] Bond 1 of aromatic type is not allowed 222: ERROR: [FeaturesValidation] Bond 2 of aromatic type is not allowed 222: ERROR: [FeaturesValidation] Bond 3 of aromatic type is not allowed 222: ERROR: [FeaturesValidation] Bond 5 of aromatic type is not allowed 222: ERROR: [FeaturesValidation] Bond 6 of aromatic type is not allowed 222: ERROR: [FeaturesValidation] Bond 2 of dative type is not allowed 222: ERROR: [FeaturesValidation] Bond 3 of dative type is not allowed 222: ERROR: [FeaturesValidation] Atom 2 with alias 'CF3' is not allowed 222: ERROR: [FeaturesValidation] Enhanced stereochemistry features are not allowed 222: ERROR: [StereoValidation] Atom 3 has both unknown and wedged/dashed stereo bonds. 222: here 222: ERROR: [StereoValidation] Bond 3 has assigned stereo type, but unexpected bond order. 222: there 222: ERROR: [StereoValidation] Atom 0 has stereo bonds, but less than 3 explicit substituents. 217/254 Test #222: molValidateTest ........................ Passed 0.03 sec test 223 Start 223: molChargeTest 223: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/molChargeTest 223: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize 223: Test timeout computed to be: 7200 218/254 Test #223: molChargeTest .......................... Passed 0.05 sec test 224 Start 224: molTautomerTest 224: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/molTautomerTest 224: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize 224: Test timeout computed to be: 7200 219/254 Test #220: molStandardizeTest ..................... Passed 0.48 sec test 225 Start 225: molStandardizeSmallTest 225: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/molStandardizeSmallTest 225: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize 225: Test timeout computed to be: 7200 220/254 Test #225: molStandardizeSmallTest ................ Passed 0.03 sec test 226 Start 226: molFragmentTest 226: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/molFragmentTest 226: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize 226: Test timeout computed to be: 7200 226: [09:22:48] SMARTS Parse Error: syntax error while parsing: [Cl 226: [09:22:48] SMARTS Parse Error: check for mistakes around position 3: 226: [09:22:48] [Cl 226: [09:22:48] ~~^ 226: [09:22:48] SMARTS Parse Error: Failed parsing SMARTS '[Cl' for input: '[Cl' 221/254 Test #226: molFragmentTest ........................ Passed 0.03 sec test 227 Start 227: molStandardizeCatchTest 227: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/molStandardizeCatchTest 227: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize 227: Test timeout computed to be: 7200 224: [09:22:48] Tautomer enumeration stopped at 295 tautomers: max transforms reached 227: Randomness seeded to: 3330724065 227: * - * - * - * m1 227: * - * - * - * m2 227: * - * - * - * m1 227: * - * - * - * m2 227: [09:22:49] Can't kekulize mol. Unkekulized atoms: 3 7 227: [09:22:49] Can't kekulize mol. Unkekulized atoms: 3 8 227: [09:22:49] Can't kekulize mol. Unkekulized atoms: 2 3 4 224: [09:22:49] Tautomer enumeration stopped at 295 tautomers: max transforms reached 224: [09:22:49] Tautomer enumeration stopped at 50 tautomers: max tautomers reached 219: ....... 219: ---------------------------------------------------------------------- 219: Ran 7 tests in 0.835s 219: 219: OK 222/254 Test #219: pyTestLazyNumpy ........................ Passed 0.89 sec test 228 Start 228: molStandardizePipelineTest 228: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/molStandardizePipelineTest 228: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize 228: Test timeout computed to be: 7200 228: Randomness seeded to: 1220499154 228: 1 Counts line too short: '' on line4 228: 1 Could not instantiate a valid molecule from input 228: 8 Molecule has no atoms 228: [09:22:49] Explicit valence for atom # 1 N, 4, is greater than permitted 228: [09:22:49] Explicit valence for atom # 1 N, 4, is greater than permitted 228: 8 Explicit valence for atom # 1 N, 4, is greater than permitted 228: 128 An error occurred while preparing the molecule for standardization. 228: 8 The molecule contains an unknown isotope: 3C 228: 4 Query atom 0 is not allowed 228: 4 Bond 0 of aromatic type is not allowed 228: 4 Bond 1 of aromatic type is not allowed 228: 4 Bond 2 of aromatic type is not allowed 228: 4 Bond 3 of aromatic type is not allowed 228: 4 Bond 5 of aromatic type is not allowed 228: 4 Bond 6 of aromatic type is not allowed 228: 4 Bond 2 of dative type is not allowed 228: 4 Bond 3 of dative type is not allowed 228: 4 Enhanced stereochemistry features are not allowed 224: [09:22:49] Tautomer enumeration stopped at 151 tautomers: canceled 224: Enumeration was canceled due to timeout (50 ms) 228: 8 The radical at atom 0 is not allowed 228: [09:22:49] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 228: 16 The molecule includes non-null Z coordinates 228: 32 Atom 0 too close to bond 2 228: 32 The length of bond 3 between atoms 0 and 3 exceeds a configured limit 228: 64 Atom 0 has 3 explicit substituents and multiple stereo bonds 228: 64 Atom 0 has adjacent stereo bonds with like orientation 228: [09:22:49] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 228: 16 The molecule includes non-null Z coordinates 228: 64 Atom 0 has adjacent stereo bonds with like orientation 228: 32 The length of bond 16 between atoms 16 and 1 exceeds a configured limit 228: 8388608 One or more metal atoms were disconnected. 228: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 228: 67108864 The protonation state was adjusted. 228: 16777216 The representation of some functional groups was adjusted. 228: 67108864 The protonation state was adjusted. 228: 16777216 The representation of some functional groups was adjusted. 228: 67108864 The protonation state was adjusted. 228: 16777216 The representation of some functional groups was adjusted. 228: 16777216 The representation of some functional groups was adjusted. 228: 67108864 The protonation state was adjusted. 228: 16777216 The representation of some functional groups was adjusted. 228: 67108864 The protonation state was adjusted. 228: 16777216 The representation of some functional groups was adjusted. 228: 67108864 The protonation state was adjusted. 228: 16777216 The representation of some functional groups was adjusted. 228: 67108864 The protonation state was adjusted. 228: 8388608 One or more metal atoms were disconnected. 228: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 228: 67108864 The protonation state was adjusted. 228: 8388608 One or more metal atoms were disconnected. 228: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 228: 67108864 The protonation state was adjusted. 228: 8388608 One or more metal atoms were disconnected. 228: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 228: 67108864 The protonation state was adjusted. 228: 8388608 One or more metal atoms were disconnected. 228: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 228: 67108864 The protonation state was adjusted. 228: 8388608 One or more metal atoms were disconnected. 228: 33554432 One or more disconnected fragments (e.g., counterions) were removed. 228: 67108864 The protonation state was adjusted. 228: 16777216 The "wavy" style of bond 4 was removed 228: 16777216 Double bond 1 was assigned an undefined/unknown stereochemical configuration 228: 16777216 The "wavy" style of bond 2 was removed 228: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 228: 16777216 The "wavy" style of bond 1 was removed 228: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 228: 16777216 The "wavy" style of bond 1 was removed 228: 16777216 The "wavy" style of bond 4 was removed 228: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 228: 16777216 The "wavy" style of bond 3 was removed 228: 16777216 Double bond 1 was assigned an undefined/unknown stereochemical configuration 228: 16777216 The "wavy" style of bond 2 was removed 228: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 228: 16777216 The "wavy" style of bond 1 was removed 228: 16777216 Double bond 2 was assigned an undefined/unknown stereochemical configuration 228: 16777216 The "wavy" style of bond 1 was removed 228: 16777216 The "wavy" style of bond 4 was removed 228: 16777216 The "wavy" style of bond 3 was removed 228: 16777216 The representation of some functional groups was adjusted. 228: [09:22:49] Can't kekulize mol. Unkekulized atoms: 2 3 5 228: =============================================================================== 228: All tests passed (318 assertions in 5 test cases) 228: 223/254 Test #228: molStandardizePipelineTest ............. Passed 0.10 sec test 229 Start 229: pyMolStandardize 229: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolStandardize/Wrap/testMolStandardize.py" 229: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolStandardize/Wrap 229: Test timeout computed to be: 7200 224: 375 224: Enumeration has completed 224: [09:22:49] Tautomer enumeration stopped at 154 tautomers: canceled 208: ..................[09:22:49] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 229: ......[09:22:49] Tautomer enumeration stopped at 295 tautomers: max transforms reached 229: [09:22:49] Tautomer enumeration stopped at 50 tautomers: max tautomers reached 224: CN=c1cc[nH]cn1 224: CN=c1ccnc[nH]1 224: CNc1ccncn1 224: res: CNc1ccncn1 224: CN=c1cccc[nH]1 224: CNc1ccccn1 224: res: CNc1ccccn1 229: .[09:22:49] Tautomer enumeration stopped at 131 tautomers: canceled 229: Enumeration was canceled due to timeout (50 ms) 224/254 Test #224: molTautomerTest ........................ Passed 1.30 sec test 230 Start 230: testScaffoldNetwork 230: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork/testScaffoldNetwork 230: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork 230: Test timeout computed to be: 7200 184: Randomness seeded to: 2636150219 184: =============================================================================== 184: All tests passed (90 assertions in 16 test cases) 184: 225/254 Test #184: testEnumerateStereoisomers ............. Passed 17.10 sec test 231 Start 231: pyScaffoldNetwork 231: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/ScaffoldNetwork/Wrap/testScaffoldNetwork.py" 231: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap 231: Test timeout computed to be: 7200 229: Enumeration has completed 229: [09:22:50] Tautomer enumeration stopped at 129 tautomers: canceled 231: ....... 231: ---------------------------------------------------------------------- 231: Ran 7 tests in 0.018s 231: 231: OK 226/254 Test #231: pyScaffoldNetwork ...................... Passed 0.12 sec test 232 Start 232: pyScaffoldNetworkPickling 232: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/ScaffoldNetwork/Wrap/testPickleScaffoldNetwork.py" 232: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap 232: Test timeout computed to be: 7200 230: Randomness seeded to: 733979591 230: =============================================================================== 230: All tests passed (273 assertions in 19 test cases) 230: 227/254 Test #230: testScaffoldNetwork .................... Passed 0.55 sec test 233 Start 233: testMolEnumerator 233: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator/testMolEnumerator 233: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator 233: Test timeout computed to be: 7200 229: ..........[09:22:50] Explicit valence for atom # 1 N, 4, is greater than permitted 229: [09:22:50] Explicit valence for atom # 1 N, 4, is greater than permitted 229: [09:22:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 229: [09:22:50] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 233: Randomness seeded to: 3995313005 233: [09:22:50] can only enumerate SRUs with CONNECT=HT or CONNECT=HH 233: =============================================================================== 233: All tests passed (321 assertions in 16 test cases) 233: 228/254 Test #233: testMolEnumerator ...................... Passed 0.05 sec test 234 Start 234: pyMolEnumerator 234: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolEnumerator/Wrap/rough_test.py" 234: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap 234: Test timeout computed to be: 7200 232: . 232: ---------------------------------------------------------------------- 232: Ran 1 test in 0.006s 232: 232: OK 229/254 Test #232: pyScaffoldNetworkPickling .............. Passed 0.12 sec test 235 Start 235: testAbbreviations 235: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations/testAbbreviations 235: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations 235: Test timeout computed to be: 7200 235: Randomness seeded to: 4072754617 235: [09:22:50] SMARTS Parse Error: syntax error while parsing: *fail 235: [09:22:50] SMARTS Parse Error: check for mistakes around position 2: 235: [09:22:50] *fail 235: [09:22:50] ~^ 235: [09:22:50] SMARTS Parse Error: Failed parsing SMARTS '*fail' for input: '*fail' 235: [09:22:50] no suitable SubstanceGroups found 235: [09:22:50] SUP group without any bonds 235: [09:22:50] SUP group without any bonds 235: =============================================================================== 235: All tests passed (203 assertions in 13 test cases) 235: 230/254 Test #235: testAbbreviations ...................... Passed 0.02 sec test 236 Start 236: pyAbbreviations 236: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/Abbreviations/Wrap/testAbbreviations.py" 236: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/Abbreviations/Wrap 236: Test timeout computed to be: 7200 234: ... 234: ---------------------------------------------------------------------- 234: Ran 3 tests in 0.006s 234: 234: OK 231/254 Test #234: pyMolEnumerator ........................ Passed 0.10 sec test 237 Start 237: generalizedSubstructCatch 237: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/generalizedSubstructCatch 237: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct 237: Test timeout computed to be: 7200 236: ....... 236: ---------------------------------------------------------------------- 236: Ran 7 tests in 0.009s 236: 236: OK 232/254 Test #236: pyAbbreviations ........................ Passed 0.10 sec test 238 Start 238: pyGeneralizedSubstruct 238: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/GeneralizedSubstruct/Wrap/testGeneralizedSubstruct.py" 238: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/GeneralizedSubstruct/Wrap 238: Test timeout computed to be: 7200 237: Randomness seeded to: 825191717 237: =============================================================================== 237: All tests passed (486 assertions in 10 test cases) 237: 233/254 Test #237: generalizedSubstructCatch .............. Passed 0.11 sec test 239 Start 239: testMolProcessing 239: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing/testMolProcessing 239: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing 239: Test timeout computed to be: 7200 238: ....... 238: ---------------------------------------------------------------------- 238: Ran 7 tests in 0.066s 238: 238: OK 234/254 Test #238: pyGeneralizedSubstruct ................. Passed 0.18 sec test 240 Start 240: pyMolProcessing 240: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolProcessing/Wrap/testMolProcessing.py" 240: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolProcessing/Wrap 240: Test timeout computed to be: 7200 229: ............[09:22:51] Warning: molecule is tagged as 2D, but at least one Z coordinate is not zero. Marking the mol as 3D. 229: [09:22:51] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 1 ignored. 229: [09:22:51] Warning: ambiguous stereochemistry - opposing bonds have opposite wedging - at atom 1 ignored. 229: ........[09:22:51] Explicit valence for atom # 1 O, 3, is greater than permitted 229: ...[09:22:51] WARNING: Omitted undefined stereo 229: 229: [09:22:51] WARNING: Omitted undefined stereo 229: 229: . 229: ---------------------------------------------------------------------- 229: Ran 41 tests in 1.706s 229: 229: OK 229: done 235/254 Test #229: pyMolStandardize ....................... Passed 1.85 sec 240: .. 240: ---------------------------------------------------------------------- 240: Ran 2 tests in 0.077s 240: 240: OK test 241 Start 241: testMIF 241: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields/testMIF 241: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields 241: Test timeout computed to be: 7200 236/254 Test #240: pyMolProcessing ........................ Passed 0.27 sec test 242 Start 242: pyMIF 242: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/GraphMol/MolInteractionFields/Wrap/testMIF.py" 242: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/GraphMol/MolInteractionFields/Wrap 242: Test timeout computed to be: 7200 241: Randomness seeded to: 3781786305 241: =============================================================================== 241: All tests passed (27926 assertions in 8 test cases) 241: 237/254 Test #241: testMIF ................................ Passed 0.04 sec test 243 Start 243: testQuery 243: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Query/testQuery 243: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Query 243: Test timeout computed to be: 7200 243: Randomness seeded to: 4078229291 243: =============================================================================== 243: All tests passed (111 assertions in 16 test cases) 243: 238/254 Test #243: testQuery .............................. Passed 0.00 sec test 244 Start 244: testBaseFeatures 244: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Features/testBaseFeatures 244: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Features 244: Test timeout computed to be: 7200 244: Randomness seeded to: 1550309593 244: =============================================================================== 244: All tests passed (61 assertions in 3 test cases) 244: 239/254 Test #244: testBaseFeatures ....................... Passed 0.00 sec test 245 Start 245: testMatCalc 245: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc/testMatCalc 245: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc 245: Test timeout computed to be: 7200 245: 1.68022e+08 245: 1.73149e+08 245: 1.05549e+08 245: 7.20603e+07 245: 1.41535e+08 245: 1.08592e+08 245: 1.11334e+08 245: 2.05553e+08 245: 1.54962e+08 245: 8.08231e+07 245: 5.61421e+07 245: 1.28874e+08 245: 1.59011e+08 245: 8.69902e+07 245: 1.31367e+08 245: 2.27389e+08 245: 1.60289e+08 245: 7.79813e+07 245: 1.61001e+08 245: 2.07599e+08 245: 2.24432e+08 245: 1.39725e+08 245: 2.42614e+08 245: 1.77578e+08 245: 1.05908e+08 245: 9.06742e+07 245: 1.8087e+08 245: 1.98182e+08 245: 2.03052e+08 245: 1.7673e+08 245: 9.32798e+07 245: 1.37969e+08 245: 1.83778e+08 245: 2.1228e+08 245: 5.06157e+07 245: 1.566e+08 245: 2.37142e+08 245: 1.49345e+08 245: 7.05819e+07 245: 1.71633e+08 245: 1.96817e+08 245: 2.18246e+08 245: 9.49496e+07 245: 2.25618e+08 245: 1.30219e+08 240/254 Test #245: testMatCalc ............................ Passed 0.00 sec test 246 Start 246: pyMatCalc 246: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/DataManip/MetricMatrixCalc/Wrap/testMatricCalc.py" 246: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap 246: Test timeout computed to be: 7200 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 8 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 29 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 49 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 70 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 89 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 111 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 132 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 153 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 175 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 195 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 215 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 236 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 256 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 278 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 297 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 319 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 339 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 360 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 380 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 402 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 422 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 443 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 464 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 484 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 505 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 525 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 547 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 566 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 586 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 605 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 624 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 645 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 666 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 686 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 707 151: [09:22:51] UFFTYPER: Warning: hybridization set to SP3 for atom 729 242: ....... 242: ---------------------------------------------------------------------- 242: Ran 7 tests in 0.037s 242: 242: OK 242: Testing MIF wrapper 241/254 Test #242: pyMIF .................................. Passed 0.23 sec test 247 Start 247: testSimDivPickers 247: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/testSimDivPickers 247: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers 247: Test timeout computed to be: 7200 247: Randomness seeded to: 1957176543 247: =============================================================================== 247: All tests passed (13 assertions in 2 test cases) 247: 242/254 Test #247: testSimDivPickers ...................... Passed 0.00 sec test 248 Start 248: pickersTestsCatch 248: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/pickersTestsCatch 248: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers 248: Test timeout computed to be: 7200 248: Randomness seeded to: 422331774 248: =============================================================================== 248: All tests passed (21267 assertions in 1 test case) 248: 243/254 Test #248: pickersTestsCatch ...................... Passed 0.04 sec 246: ..... 246: ---------------------------------------------------------------------- 246: Ran 5 tests in 0.147s 246: 246: OK test 249 Start 249: pySimDivPickers 249: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/SimDivPickers/Wrap/testPickers.py" 249: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap 249: Test timeout computed to be: 7200 244/254 Test #246: pyMatCalc .............................. Passed 0.28 sec test 250 Start 250: pyRanker 250: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/ML/InfoTheory/Wrap/testRanker.py" 250: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap 250: Test timeout computed to be: 7200 239: Randomness seeded to: 3230363139 239: =============================================================================== 239: All tests passed (203 assertions in 1 test case) 239: 245/254 Test #239: testMolProcessing ...................... Passed 0.73 sec test 251 Start 251: testChemicalFeatures 251: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures/testChemicalFeatures 251: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures 251: Test timeout computed to be: 7200 251: Randomness seeded to: 2980694677 251: =============================================================================== 251: All tests passed (24 assertions in 1 test case) 251: 246/254 Test #251: testChemicalFeatures ................... Passed 0.01 sec test 252 Start 252: pyFeatures 252: Test command: /usr/bin/python3 "/build/reproducible-path/rdkit-202603.2/Code/ChemicalFeatures/Wrap/testFeatures.py" 252: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/ChemicalFeatures/Wrap 252: Test timeout computed to be: 7200 151: =============================================================================== 151: All tests passed (12829 assertions in 29 test cases) 151: 247/254 Test #151: distGeomHelpersCatch ................... Passed 51.16 sec test 253 Start 253: quickbench 253: Test command: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench/bench "--benchmark-samples" "1" "--benchmark-warmup-time" "0" 253: Working Directory: /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/Code/Bench 253: Test timeout computed to be: 7200 249: [09:22:51] the useCache argument is deprecated and ignored 250: ..[09:22:51] 250: 250: **** 250: Invariant Violation 250: Can't rank more bits than the ensemble size 250: Violation occurred on line 155 in file ./Code/ML/InfoTheory/InfoBitRanker.cpp 250: Failed Expression: num <= dp_maskBits->getNumOnBits() 250: ---------- 250: Stacktrace: 250: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 250: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 250: 2# RDInfoTheory::InfoBitRanker::getTopN(unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitInfoTheory.so.1 250: 3# RDInfoTheory::getTopNbits(RDInfoTheory::InfoBitRanker*, int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/ML/InfoTheory/rdInfoTheory.so 250: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/ML/InfoTheory/rdInfoTheory.so 250: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 250: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 250: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 250: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 250: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 250: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 250: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 250: 12# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 250: 13# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 250: 14# _PyObject_MakeTpCall in /usr/bin/python3 250: 15# _PyEval_EvalFrameDefault in /usr/bin/python3 250: 16# 0x00000000001DD0A7 in /usr/bin/python3 250: 17# _PyEval_EvalFrameDefault in /usr/bin/python3 250: 18# 0x00000000002A967B in /usr/bin/python3 250: 19# 0x000000000024191D in /usr/bin/python3 250: 20# _PyObject_MakeTpCall in /usr/bin/python3 250: 21# _PyEval_EvalFrameDefault in /usr/bin/python3 250: 22# 0x00000000001DD0A7 in /usr/bin/python3 250: 23# _PyEval_EvalFrameDefault in /usr/bin/python3 250: 24# 0x00000000002A967B in /usr/bin/python3 250: 25# 0x000000000024191D in /usr/bin/python3 250: 26# _PyObject_MakeTpCall in /usr/bin/python3 250: 27# _PyEval_EvalFrameDefault in /usr/bin/python3 250: 28# 0x00000000001DD0A7 in /usr/bin/python3 250: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 250: 30# 0x00000000002A967B in /usr/bin/python3 250: 31# 0x000000000024191D in /usr/bin/python3 250: 32# _PyObject_MakeTpCall in /usr/bin/python3 250: 33# _PyEval_EvalFrameDefault in /usr/bin/python3 250: 34# 0x00000000001AE9E2 in /usr/bin/python3 250: 35# _PyObject_MakeTpCall in /usr/bin/python3 250: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 250: 37# PyEval_EvalCode in /usr/bin/python3 250: 38# 0x00000000002C1C44 in /usr/bin/python3 250: 39# 0x00000000002BEBDF in /usr/bin/python3 250: 40# 0x00000000002D0454 in /usr/bin/python3 250: 41# 0x00000000002CFEE9 in /usr/bin/python3 250: 42# 0x00000000002CFD1E in /usr/bin/python3 250: 43# Py_RunMain in /usr/bin/python3 250: 44# Py_BytesMain in /usr/bin/python3 250: 45# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 250: 46# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 250: 47# _start in /usr/bin/python3 250: ---------- 250: **** 250: 252: .. 252: ---------------------------------------------------------------------- 250: ... 250: ---------------------------------------------------------------------- 252: Ran 2 tests in 0.001s 252: 252: OK 250: Ran 5 tests in 0.012s 250: 250: OK 252: Testing ChemicalFeatures Wrapper code: 248/254 Test #252: pyFeatures ............................. Passed 0.10 sec test 254 Start 254: pythonProjectTests 254: Test command: /usr/bin/python3 "-m" "pytest" 254: Working Directory: /build/reproducible-path/rdkit-202603.2/Projects 254: Test timeout computed to be: 7200 249/254 Test #250: pyRanker ............................... Passed 0.15 sec 249: ...[09:22:51] the useCache argument is deprecated and ignored 249: [09:22:51] the useCache argument is deprecated and ignored 249: .[09:22:51] the useCache argument is deprecated and ignored 249: ....... 249: ---------------------------------------------------------------------- 249: Ran 11 tests in 0.518s 249: 249: OK 250/254 Test #249: pySimDivPickers ........................ Passed 0.65 sec 254: ============================= test session starts ============================== 254: platform linux -- Python 3.13.12, pytest-9.0.3, pluggy-1.6.0 254: rootdir: /build/reproducible-path/rdkit-202603.2/Projects 254: configfile: pytest.ini 254: collected 12 items 254: 253: Randomness seeded to: 3505257707 253: 253: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253: bench is a Catch2 v3.7.1 host application. 253: Run with -? for options 253: 253: ------------------------------------------------------------------------------- 253: Descriptors::calcNumSpiroAtoms 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/descriptors.cpp:11 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: Descriptors::calcNumSpiroAtoms 1 244 702.964 us 253: 2.87278 us 2.87278 us 2.87278 us 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: Descriptors::calcNumBridgeheadAtoms 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/descriptors.cpp:22 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: Descriptors::calcNumBridgeheadAtoms 1 207 702.972 us 253: 2.60723 us 2.60723 us 2.60723 us 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: MorganFingerprints::getFingerprint 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/fingerprint.cpp:11 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: MorganFingerprints::getFingerprint 1 2 883.186 us 253: 443.937 us 443.937 us 443.937 us 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: bench_common::nth_random 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/meta.cpp:8 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: bench_common::nth_random 1 498925 498.925 us 253: 1.36671 ns 1.36671 ns 1.36671 ns 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: ROMol copy constructor 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/mol.cpp:11 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: ROMol copy constructor 1 8 776.272 us 253: 98.228 us 98.228 us 98.228 us 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: ROMol destructor 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/mol.cpp:25 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: ROMol destructor 1 15 716.67 us 253: 39.8306 us 39.8306 us 39.8306 us 253: 0 ns 0 ns 0 ns 253: 253: 208: ..[09:22:53] 208: 208: **** 208: Pre-condition Violation 208: no owner 208: Violation occurred on line 157 in file ./Code/GraphMol/Atom.h 208: Failed Expression: dp_mol 208: ---------- 208: Stacktrace: 208: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 3# boost::python::objects::caller_py_function_impl, boost::mpl::vector2 > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 208: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 208: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 208: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 208: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 16# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 17# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 18# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 19# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 20# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 21# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 25# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 26# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 27# _PyObject_MakeTpCall in /usr/bin/python3 208: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 29# 0x00000000001DD0A7 in /usr/bin/python3 208: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 31# 0x00000000002A967B in /usr/bin/python3 208: 32# 0x000000000024191D in /usr/bin/python3 208: 33# _PyObject_MakeTpCall in /usr/bin/python3 208: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 35# 0x00000000001DD0A7 in /usr/bin/python3 208: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 37# 0x00000000002A967B in /usr/bin/python3 208: 38# 0x000000000024191D in /usr/bin/python3 208: 39# _PyObject_MakeTpCall in /usr/bin/python3 208: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 41# 0x00000000001DD0A7 in /usr/bin/python3 208: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 43# 0x00000000002A967B in /usr/bin/python3 208: 44# 0x000000000024191D in /usr/bin/python3 208: 45# _PyObject_MakeTpCall in /usr/bin/python3 208: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 47# 0x00000000001AE9E2 in /usr/bin/python3 208: 48# _PyObject_MakeTpCall in /usr/bin/python3 208: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 50# PyEval_EvalCode in /usr/bin/python3 208: 51# 0x00000000002C1C44 in /usr/bin/python3 208: 52# 0x00000000002BEBDF in /usr/bin/python3 208: 53# 0x00000000002D0454 in /usr/bin/python3 208: 54# 0x00000000002CFEE9 in /usr/bin/python3 208: 55# 0x00000000002CFD1E in /usr/bin/python3 208: 56# Py_RunMain in /usr/bin/python3 208: 57# Py_BytesMain in /usr/bin/python3 208: 58# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 59# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 60# _start in /usr/bin/python3 208: ---------- 208: **** 208: 208: [09:22:53] 208: 208: **** 208: Pre-condition Violation 208: no owner 208: Violation occurred on line 157 in file ./Code/GraphMol/Atom.h 208: Failed Expression: dp_mol 208: ---------- 208: Stacktrace: 208: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 3# RDKit::AtomGetNeighbors(RDKit::Atom*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 208: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 208: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 208: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 208: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 17# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 18# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 19# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 20# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 21# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 25# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 26# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 27# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 28# _PyObject_MakeTpCall in /usr/bin/python3 208: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 30# 0x00000000001DD0A7 in /usr/bin/python3 208: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 32# 0x00000000002A967B in /usr/bin/python3 208: 33# 0x000000000024191D in /usr/bin/python3 208: 34# _PyObject_MakeTpCall in /usr/bin/python3 208: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 36# 0x00000000001DD0A7 in /usr/bin/python3 208: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 38# 0x00000000002A967B in /usr/bin/python3 208: 39# 0x000000000024191D in /usr/bin/python3 208: 40# _PyObject_MakeTpCall in /usr/bin/python3 208: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 42# 0x00000000001DD0A7 in /usr/bin/python3 208: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 44# 0x00000000002A967B in /usr/bin/python3 208: 45# 0x000000000024191D in /usr/bin/python3 208: 46# _PyObject_MakeTpCall in /usr/bin/python3 208: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 48# 0x00000000001AE9E2 in /usr/bin/python3 208: 49# _PyObject_MakeTpCall in /usr/bin/python3 208: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 51# PyEval_EvalCode in /usr/bin/python3 208: 52# 0x00000000002C1C44 in /usr/bin/python3 208: 53# 0x00000000002BEBDF in /usr/bin/python3 208: 54# 0x00000000002D0454 in /usr/bin/python3 208: 55# 0x00000000002CFEE9 in /usr/bin/python3 208: 56# 0x00000000002CFD1E in /usr/bin/python3 208: 57# Py_RunMain in /usr/bin/python3 208: 58# Py_BytesMain in /usr/bin/python3 208: 59# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 60# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 61# _start in /usr/bin/python3 208: ---------- 208: **** 208: 208: [09:22:53] 208: 208: **** 208: Pre-condition Violation 208: no owner 208: Violation occurred on line 157 in file ./Code/GraphMol/Atom.h 208: Failed Expression: dp_mol 208: ---------- 208: Stacktrace: 208: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 3# RDKit::AtomGetBonds(RDKit::Atom*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 208: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 208: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 208: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 208: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 17# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 18# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 19# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 20# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 21# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 25# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 26# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 27# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 28# _PyObject_MakeTpCall in /usr/bin/python3 208: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 30# 0x00000000001DD0A7 in /usr/bin/python3 208: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 32# 0x00000000002A967B in /usr/bin/python3 208: 33# 0x000000000024191D in /usr/bin/python3 208: 34# _PyObject_MakeTpCall in /usr/bin/python3 208: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 36# 0x00000000001DD0A7 in /usr/bin/python3 208: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 38# 0x00000000002A967B in /usr/bin/python3 208: 39# 0x000000000024191D in /usr/bin/python3 208: 40# _PyObject_MakeTpCall in /usr/bin/python3 208: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 42# 0x00000000001DD0A7 in /usr/bin/python3 208: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 44# 0x00000000002A967B in /usr/bin/python3 208: 45# 0x000000000024191D in /usr/bin/python3 208: 46# _PyObject_MakeTpCall in /usr/bin/python3 208: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 48# 0x00000000001AE9E2 in /usr/bin/python3 208: 49# _PyObject_MakeTpCall in /usr/bin/python3 208: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 51# PyEval_EvalCode in /usr/bin/python3 208: 52# 0x00000000002C1C44 in /usr/bin/python3 208: 53# 0x00000000002BEBDF in /usr/bin/python3 208: 54# 0x00000000002D0454 in /usr/bin/python3 208: 55# 0x00000000002CFEE9 in /usr/bin/python3 208: 56# 0x00000000002CFD1E in /usr/bin/python3 208: 57# Py_RunMain in /usr/bin/python3 208: 58# Py_BytesMain in /usr/bin/python3 208: 59# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 60# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 61# _start in /usr/bin/python3 208: ---------- 208: **** 208: 208: [09:22:53] 208: 208: **** 208: Pre-condition Violation 208: no owner 208: Violation occurred on line 157 in file ./Code/GraphMol/Atom.h 208: Failed Expression: dp_mol 208: ---------- 208: Stacktrace: 208: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 3# RDKit::AtomIsInRing(RDKit::Atom const*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 208: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 208: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 208: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 208: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 17# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 18# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 19# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 20# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 21# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 25# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 26# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 27# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 28# _PyObject_MakeTpCall in /usr/bin/python3 208: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 30# 0x00000000001DD0A7 in /usr/bin/python3 208: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 32# 0x00000000002A967B in /usr/bin/python3 208: 33# 0x000000000024191D in /usr/bin/python3 208: 34# _PyObject_MakeTpCall in /usr/bin/python3 208: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 36# 0x00000000001DD0A7 in /usr/bin/python3 208: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 38# 0x00000000002A967B in /usr/bin/python3 208: 39# 0x000000000024191D in /usr/bin/python3 208: 40# _PyObject_MakeTpCall in /usr/bin/python3 208: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 42# 0x00000000001DD0A7 in /usr/bin/python3 208: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 44# 0x00000000002A967B in /usr/bin/python3 208: 45# 0x000000000024191D in /usr/bin/python3 208: 46# _PyObject_MakeTpCall in /usr/bin/python3 208: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 48# 0x00000000001AE9E2 in /usr/bin/python3 208: 49# _PyObject_MakeTpCall in /usr/bin/python3 208: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 51# PyEval_EvalCode in /usr/bin/python3 208: 52# 0x00000000002C1C44 in /usr/bin/python3 208: 53# 0x00000000002BEBDF in /usr/bin/python3 208: 54# 0x00000000002D0454 in /usr/bin/python3 208: 55# 0x00000000002CFEE9 in /usr/bin/python3 208: 56# 0x00000000002CFD1E in /usr/bin/python3 208: 57# Py_RunMain in /usr/bin/python3 208: 58# Py_BytesMain in /usr/bin/python3 208: 59# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 60# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 61# _start in /usr/bin/python3 208: ---------- 208: **** 208: 208: [09:22:53] 208: 208: **** 208: Pre-condition Violation 208: no owner 208: Violation occurred on line 157 in file ./Code/GraphMol/Atom.h 208: Failed Expression: dp_mol 208: ---------- 208: Stacktrace: 208: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 2# RDKit::Atom::getOwningMol() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 3# RDKit::AtomIsInRingSize(RDKit::Atom const*, int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 208: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 208: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 208: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 208: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 17# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 18# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 19# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 20# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 21# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 25# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 26# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 27# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 28# _PyObject_MakeTpCall in /usr/bin/python3 208: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 30# 0x00000000001DD0A7 in /usr/bin/python3 208: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 32# 0x00000000002A967B in /usr/bin/python3 208: 33# 0x000000000024191D in /usr/bin/python3 208: 34# _PyObject_MakeTpCall in /usr/bin/python3 208: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 36# 0x00000000001DD0A7 in /usr/bin/python3 208: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 38# 0x00000000002A967B in /usr/bin/python3 208: 39# 0x000000000024191D in /usr/bin/python3 208: 40# _PyObject_MakeTpCall in /usr/bin/python3 208: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 42# 0x00000000001DD0A7 in /usr/bin/python3 208: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 44# 0x00000000002A967B in /usr/bin/python3 208: 45# 0x000000000024191D in /usr/bin/python3 208: 46# _PyObject_MakeTpCall in /usr/bin/python3 208: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 48# 0x00000000001AE9E2 in /usr/bin/python3 208: 49# _PyObject_MakeTpCall in /usr/bin/python3 208: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 51# PyEval_EvalCode in /usr/bin/python3 208: 52# 0x00000000002C1C44 in /usr/bin/python3 208: 53# 0x00000000002BEBDF in /usr/bin/python3 208: 54# 0x00000000002D0454 in /usr/bin/python3 208: 55# 0x00000000002CFEE9 in /usr/bin/python3 208: 56# 0x00000000002CFD1E in /usr/bin/python3 208: 57# Py_RunMain in /usr/bin/python3 208: 58# Py_BytesMain in /usr/bin/python3 208: 59# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 60# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 61# _start in /usr/bin/python3 208: ---------- 208: **** 208: 208: .....[09:22:53] 208: 208: **** 208: Range Error 208: idx 208: Violation occurred on line 202 in file ./Code/GraphMol/ROMol.cpp 208: Failed Expression: 0 < 0 208: ---------- 208: Stacktrace: 208: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 208: 3# RDKit::RWMol::addBond(unsigned int, unsigned int, RDKit::Bond::BondType) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 208: 4# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 5# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 6# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 7# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 208: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 208: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 208: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 208: 16# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 17# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 18# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 19# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 20# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 21# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 25# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 26# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 27# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 28# _PyObject_MakeTpCall in /usr/bin/python3 208: 29# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 30# 0x00000000001DD0A7 in /usr/bin/python3 208: 31# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 32# 0x00000000002A967B in /usr/bin/python3 208: 33# 0x000000000024191D in /usr/bin/python3 208: 34# _PyObject_MakeTpCall in /usr/bin/python3 208: 35# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 36# 0x00000000001DD0A7 in /usr/bin/python3 208: 37# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 38# 0x00000000002A967B in /usr/bin/python3 208: 39# 0x000000000024191D in /usr/bin/python3 208: 40# _PyObject_MakeTpCall in /usr/bin/python3 208: 41# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 42# 0x00000000001DD0A7 in /usr/bin/python3 208: 43# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 44# 0x00000000002A967B in /usr/bin/python3 208: 45# 0x000000000024191D in /usr/bin/python3 208: 46# _PyObject_MakeTpCall in /usr/bin/python3 208: 47# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 48# 0x00000000001AE9E2 in /usr/bin/python3 208: 49# _PyObject_MakeTpCall in /usr/bin/python3 208: 50# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 51# PyEval_EvalCode in /usr/bin/python3 208: 52# 0x00000000002C1C44 in /usr/bin/python3 208: 53# 0x00000000002BEBDF in /usr/bin/python3 208: 54# 0x00000000002D0454 in /usr/bin/python3 208: 55# 0x00000000002CFEE9 in /usr/bin/python3 208: 56# 0x00000000002CFD1E in /usr/bin/python3 208: 57# Py_RunMain in /usr/bin/python3 208: 58# Py_BytesMain in /usr/bin/python3 208: 59# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 60# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 61# _start in /usr/bin/python3 208: ---------- 208: **** 208: 208: ......[09:22:53] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 208: [09:22:53] ERROR: Smiles parse error on line 0 208: [09:22:53] ERROR: Cannot create molecule from : 'c1ccccc' 208: [09:22:53] SMILES Parse Error: extra open parentheses while parsing: C(C 208: [09:22:53] SMILES Parse Error: check for mistakes around position 2: 208: [09:22:53] C(C 208: [09:22:53] ~^ 208: [09:22:53] SMILES Parse Error: Failed parsing SMILES 'C(C' for input: 'C(C' 208: [09:22:53] ERROR: Smiles parse error on line 3 208: [09:22:53] ERROR: Cannot create molecule from : 'C(C' 208: [09:22:53] Explicit valence for atom # 1 C, 5, is greater than permitted 208: [09:22:53] ERROR: Could not sanitize molecule on line 6 208: [09:22:53] ERROR: Explicit valence for atom # 1 C, 5, is greater than permitted 208: [09:22:53] SMILES Parse Error: unclosed ring for input: 'c1ccccc' 208: [09:22:53] ERROR: Smiles parse error on line 0 208: [09:22:53] ERROR: Cannot create molecule from : 'c1ccccc' 208: [09:22:53] SMILES Parse Error: extra open parentheses while parsing: C(C 208: [09:22:53] SMILES Parse Error: check for mistakes around position 2: 208: [09:22:53] C(C 208: [09:22:53] ~^ 208: [09:22:53] SMILES Parse Error: Failed parsing SMILES 'C(C' for input: 'C(C' 208: [09:22:53] ERROR: Smiles parse error on line 3 208: [09:22:53] ERROR: Cannot create molecule from : 'C(C' 208: [09:22:53] SMILES Parse Error: unclosed ring for input: 'C1C(Cl)CCCC' 208: [09:22:53] ERROR: Smiles parse error on line 6 208: [09:22:53] ERROR: Cannot create molecule from : 'C1C(Cl)CCCC' 208: [09:22:53] Explicit valence for atom # 1 F, 2, is greater than permitted 208: [09:22:53] ERROR: Could not sanitize molecule ending on line 21 208: [09:22:53] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 208: [09:22:53] ERROR: EOF hit while reading atoms 208: [09:22:53] ERROR: moving to the beginning of the next molecule 208: [09:22:53] Explicit valence for atom # 1 F, 2, is greater than permitted 208: [09:22:53] ERROR: Could not sanitize molecule ending on line 21 208: [09:22:53] ERROR: Explicit valence for atom # 1 F, 2, is greater than permitted 208: [09:22:53] ERROR: EOF hit while reading atoms 208: [09:22:53] ERROR: moving to the beginning of the next molecule 208: ....[09:22:53] 208: 208: **** 208: Pre-condition Violation 208: RingInfo not initialized 208: Violation occurred on line 170 in file ./Code/GraphMol/RingInfo.cpp 208: Failed Expression: df_init 208: ---------- 208: Stacktrace: 208: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 2# RDKit::RingInfo::numRings() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 208: 3# boost::python::objects::caller_py_function_impl > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 208: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 208: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 208: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 208: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 16# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 17# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 18# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 19# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 20# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 21# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 25# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 26# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 27# _PyObject_MakeTpCall in /usr/bin/python3 208: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 29# 0x00000000001DD0A7 in /usr/bin/python3 208: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 31# 0x00000000002A967B in /usr/bin/python3 208: 32# 0x000000000024191D in /usr/bin/python3 208: 33# _PyObject_MakeTpCall in /usr/bin/python3 208: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 35# 0x00000000001DD0A7 in /usr/bin/python3 208: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 37# 0x00000000002A967B in /usr/bin/python3 208: 38# 0x000000000024191D in /usr/bin/python3 208: 39# _PyObject_MakeTpCall in /usr/bin/python3 208: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 41# 0x00000000001DD0A7 in /usr/bin/python3 208: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 43# 0x00000000002A967B in /usr/bin/python3 208: 44# 0x000000000024191D in /usr/bin/python3 208: 45# _PyObject_MakeTpCall in /usr/bin/python3 208: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 47# 0x00000000001AE9E2 in /usr/bin/python3 208: 48# _PyObject_MakeTpCall in /usr/bin/python3 208: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 50# PyEval_EvalCode in /usr/bin/python3 208: 51# 0x00000000002C1C44 in /usr/bin/python3 208: 52# 0x00000000002BEBDF in /usr/bin/python3 208: 53# 0x00000000002D0454 in /usr/bin/python3 208: 54# 0x00000000002CFEE9 in /usr/bin/python3 208: 55# 0x00000000002CFD1E in /usr/bin/python3 208: 56# Py_RunMain in /usr/bin/python3 208: 57# Py_BytesMain in /usr/bin/python3 208: 58# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 59# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 60# _start in /usr/bin/python3 208: ---------- 208: **** 208: 208: .................[09:22:53] 208: 208: **** 208: Range Error 208: idx 208: Violation occurred on line 202 in file ./Code/GraphMol/ROMol.cpp 208: Failed Expression: 3 < 1 208: ---------- 208: Stacktrace: 208: 0# Invar::Invariant::toString[abi:cxx11]() const in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 1# Invar::operator<<(std::ostream&, Invar::Invariant const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitRDGeneral.so.1 208: 2# RDKit::ROMol::getAtomWithIdx(unsigned int) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu//lib/libRDKitGraphMol.so.1 208: 3# boost::python::objects::caller_py_function_impl >, boost::mpl::vector3 > >::operator()(_object*, _object*) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 4# boost::python::objects::function::call(_object*, _object*) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 5# 0x000000000002419C in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 6# boost::python::detail::exception_handler::operator()(boost::function_n const&) const in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 7# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdSLNParse.so 208: 8# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 9# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdChemReactions.so 208: 10# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdMolChemicalFeatures.so 208: 11# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdDepictor.so 208: 12# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 13# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdmolfiles.so 208: 14# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdCIPLabeler.so 208: 15# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 16# 0x00000000001BE480 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 17# 0x00000000001BE460 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 18# 0x00000000001BE440 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 19# 0x00000000001BE420 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 20# 0x00000000001BE400 in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/Chem/rdchem.so 208: 21# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 22# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 23# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 24# boost::detail::function::function_obj_invoker, boost::_bi::list, boost::arg<2>, boost::_bi::value > >, bool, boost::python::detail::exception_handler const&, boost::function_n const&>::invoke(boost::detail::function::function_buffer&, boost::python::detail::exception_handler const&, boost::function_n const&) in /build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu/rdkit/rdBase.so 208: 25# boost::python::handle_exception_impl(boost::function_n) in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 26# 0x00000000000216A6 in /usr/lib/x86_64-linux-gnu/libboost_python313.so.1.90.0 208: 27# _PyObject_MakeTpCall in /usr/bin/python3 208: 28# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 29# 0x00000000001DD0A7 in /usr/bin/python3 208: 30# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 31# 0x00000000002A967B in /usr/bin/python3 208: 32# 0x000000000024191D in /usr/bin/python3 208: 33# _PyObject_MakeTpCall in /usr/bin/python3 208: 34# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 35# 0x00000000001DD0A7 in /usr/bin/python3 208: 36# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 37# 0x00000000002A967B in /usr/bin/python3 208: 38# 0x000000000024191D in /usr/bin/python3 208: 39# _PyObject_MakeTpCall in /usr/bin/python3 208: 40# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 41# 0x00000000001DD0A7 in /usr/bin/python3 208: 42# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 43# 0x00000000002A967B in /usr/bin/python3 208: 44# 0x000000000024191D in /usr/bin/python3 208: 45# _PyObject_MakeTpCall in /usr/bin/python3 208: 46# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 47# 0x00000000001AE9E2 in /usr/bin/python3 208: 48# _PyObject_MakeTpCall in /usr/bin/python3 208: 49# _PyEval_EvalFrameDefault in /usr/bin/python3 208: 50# PyEval_EvalCode in /usr/bin/python3 208: 51# 0x00000000002C1C44 in /usr/bin/python3 208: 52# 0x00000000002BEBDF in /usr/bin/python3 208: 53# 0x00000000002D0454 in /usr/bin/python3 208: 54# 0x00000000002CFEE9 in /usr/bin/python3 208: 55# 0x00000000002CFD1E in /usr/bin/python3 208: 56# Py_RunMain in /usr/bin/python3 208: 57# Py_BytesMain in /usr/bin/python3 208: 58# 0x0000000000029F77 in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 59# __libc_start_main in /usr/lib/x86_64-linux-gnu/libc.so.6 208: 60# _start in /usr/bin/python3 208: ---------- 208: **** 208: 208: ...[09:22:53] Can't kekulize mol. Unkekulized atoms: 0 1 2 3 4 253: ------------------------------------------------------------------------------- 253: memory pressure test 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/mol.cpp:41 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 208: ............................[09:22:54] SMILES Parse Error: unclosed ring for input: 'C1CC' 208: .......1000 208: ..[09:22:54] WARNING: not removing hydrogen atom without neighbors 208: [09:22:54] WARNING: not removing hydrogen atom with dummy atom neighbors 208: [09:22:54] WARNING: not removing hydrogen atom with wedged bond 208: [09:22:54] WARNING: not removing hydrogen atom without neighbors 208: [09:22:54] WARNING: not removing hydrogen atom with dummy atom neighbors 208: ......[09:22:54] Explicit valence for atom # 1 F, 2, is greater than permitted 208: [09:22:54] Can't kekulize mol. Unkekulized atoms: 0 1 2 208: .[09:22:54] Explicit valence for atom # 1 F, 2, is greater than permitted 208: [09:22:54] Explicit valence for atom # 1 F, 2, is greater than permitted 208: [09:22:54] Explicit valence for atom # 1 F, 2, is greater than permitted 208: [09:22:54] Explicit valence for atom # 1 F, 2, is greater than permitted 208: [09:22:54] Can't kekulize mol. Unkekulized atoms: 0 1 2 208: [09:22:54] Can't kekulize mol. Unkekulized atoms: 0 1 2 208: [09:22:54] Can't kekulize mol. Unkekulized atoms: 0 1 2 208: ..........[09:22:54] SMARTS Parse Error: syntax error while parsing: CCC |$foo;;bar$| ourname 208: [09:22:54] SMARTS Parse Error: check for mistakes around position 4: 208: [09:22:54] CCC |$foo;;bar$| ourname 208: [09:22:54] ~~~^ 208: [09:22:54] SMARTS Parse Error: Failed parsing SMARTS 'CCC |$foo;;bar$| ourname' for input: 'CCC |$foo;;bar$| ourname' 208: .[09:22:54] SMILES Parse Error: syntax error while parsing: CCC |$foo;;bar$| ourname 208: [09:22:54] SMILES Parse Error: check for mistakes around position 4: 208: [09:22:54] CCC |$foo;;bar$| ourname 208: [09:22:54] ~~~^ 208: [09:22:54] SMILES Parse Error: Failed parsing SMILES 'CCC |$foo;;bar$| ourname' for input: 'CCC |$foo;;bar$| ourname' 208: ..[09:22:54] SMILES Parse Error: syntax error while parsing: error 208: [09:22:54] SMILES Parse Error: check for mistakes around position 1: 208: [09:22:54] error 208: [09:22:54] ^ 208: [09:22:54] SMILES Parse Error: Failed parsing SMILES 'error' for input: 'error' 208: [09:22:54] SMILES Parse Error: Failed parsing SMILES 'd' for input: 'd' 208: [09:22:54] SMARTS Parse Error: Failed parsing SMARTS 'error' for input: 'error' 208: [09:22:54] SMARTS Parse Error: Failed parsing SMARTS 'd' for input: 'd' 208: ..........................[09:22:54] SMILES Parse Error: syntax error while parsing: garbage_0 208: [09:22:54] SMILES Parse Error: check for mistakes around position 1: 208: [09:22:54] garbage_0 208: [09:22:54] ^ 208: [09:22:54] SMILES Parse Error: Failed parsing SMILES 'garbage_0' for input: 'garbage_0' 208: [09:22:54] SMILES Parse Error: syntax error while parsing: garbage_2 208: [09:22:54] SMILES Parse Error: check for mistakes around position 1: 208: [09:22:54] garbage_2 208: [09:22:54] ^ 208: [09:22:54] SMILES Parse Error: Failed parsing SMILES 'garbage_2' for input: 'garbage_2' 208: [09:22:54] SMILES Parse Error: syntax error while parsing: garbage_4 208: [09:22:54] SMILES Parse Error: check for mistakes around position 1: 208: [09:22:54] garbage_4 208: [09:22:54] ^ 208: [09:22:54] SMILES Parse Error: Failed parsing SMILES 'garbage_4' for input: 'garbage_4' 208: ............ 208: ---------------------------------------------------------------------- 208: Ran 291 tests in 6.442s 208: 208: OK 208: supplier: 208: supplier: 208: supplier: 251/254 Test #208: pyGraphMolWrap ......................... Passed 6.73 sec 253: memory pressure test 1 29 711.921 us 253: 21.701 us 21.701 us 21.701 us 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: ROMol::getNumHeavyAtoms 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/mol.cpp:63 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: ROMol::getNumHeavyAtoms 1 2340 702 us 253: 261.598 ns 261.598 ns 261.598 ns 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: MolOps::addHs 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/molops.cpp:11 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: MolOps::addHs 1 3 1.00583 ms 253: 354.501 us 354.501 us 354.501 us 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: MolOps::FindSSR 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/molops.cpp:24 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: MolOps::FindSSR 1 4 837.1 us 253: 219.192 us 219.192 us 219.192 us 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: MolOps::getMolFrags 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/molops.cpp:35 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: MolOps::getMolFrags 1 1 1.1985 ms 253: 1.09721 ms 1.09721 ms 1.09721 ms 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: MolPickler::pickleMol 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/pickle.cpp:12 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: MolPickler::pickleMol 1 4 744.28 us 253: 165.401 us 165.401 us 165.401 us 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: MolPickler::molFromPickle 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/pickle.cpp:23 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: MolPickler::molFromPickle 1 5 786.545 us 253: 161.324 us 161.324 us 161.324 us 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: SmilesToMol 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/smiles.cpp:12 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: SmilesToMol 1 1 1.79926 ms 253: 1.59192 ms 1.59192 ms 1.59192 ms 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: MolToSmiles 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/smiles.cpp:24 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: MolToSmiles 1 1 1.12393 ms 253: 1.02659 ms 1.02659 ms 1.02659 ms 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: MolToCXSmiles 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/smiles.cpp:36 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: MolToCXSmiles 1 1 1.47688 ms 253: 1.29612 ms 1.29612 ms 1.29612 ms 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: Chirality::findPotentialStereo 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/stereo.cpp:15 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: Chirality::findPotentialStereo 1 1 865.169 us 253: 1.03947 ms 1.03947 ms 1.03947 ms 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: CIPLabeler::assignCIPLabels 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/stereo.cpp:36 253: ............................................................................... 253: 227: [09:22:54] Explicit valence for atom # 0 Br, 1, is greater than permitted 227: =============================================================================== 227: All tests passed (38383 assertions in 52 test cases) 227: 252/254 Test #227: molStandardizeCatchTest ................ Passed 5.73 sec 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: CIPLabeler::assignCIPLabels 1 1 277.552 ms 253: 270.872 ms 270.872 ms 270.872 ms 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: MolOps::assignStereochemistry 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/stereo.cpp:45 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: MolOps::assignStereochemistry 253: legacy=true 1 2 1.25985 ms 253: 615.124 us 615.124 us 615.124 us 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: MolOps::assignStereochemistry 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/stereo.cpp:45 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: MolOps::assignStereochemistry 253: legacy=false 1 1 1.10891 ms 253: 1.23809 ms 1.23809 ms 1.23809 ms 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: ROMol::GetSubstructMatch 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/substruct_match.cpp:62 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: ROMol::GetSubstructMatch 1 7 712.53 us 253: 93.0658 us 93.0658 us 93.0658 us 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: ROMol::GetSubstructMatch RLewis 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/substruct_match.cpp:77 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: ROMol::GetSubstructMatch RLewis 1 1 15.0122 ms 253: 14.6195 ms 14.6195 ms 14.6195 ms 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: ROMol::GetSubstructMatch patty 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/substruct_match.cpp:94 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: ROMol::GetSubstructMatch patty 1 1 2.53631 ms 253: 2.3258 ms 2.3258 ms 2.3258 ms 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: MolToInchi 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/inchi.cpp:12 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: MolToInchi 1 1 3.81116 ms 253: 3.37281 ms 3.37281 ms 3.37281 ms 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: InchiToInchiKey 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/inchi.cpp:24 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: InchiToInchiKey 1 24 705.96 us 253: 29.6551 us 29.6551 us 29.6551 us 253: 0 ns 0 ns 0 ns 253: 253: 253: ------------------------------------------------------------------------------- 253: InchiToMol 253: ------------------------------------------------------------------------------- 253: ./Code/Bench/inchi.cpp:40 253: ............................................................................... 253: 253: benchmark name samples iterations est run time 253: mean low mean high mean 253: std dev low std dev high std dev 253: ------------------------------------------------------------------------------- 253: InchiToMol 1 1 6.77745 ms 253: 6.12396 ms 6.12396 ms 6.12396 ms 253: 0 ns 0 ns 0 ns 253: 253: 253: =============================================================================== 253: All tests passed (877 assertions in 25 test cases) 253: 253/254 Test #253: quickbench ............................. Passed 3.52 sec 254: DbCLI/UnitTestDbCLI.py ............ [100%] 254: 254: =============================== warnings summary =============================== 254: ../obj-x86_64-linux-gnu/rdkit/Chem/MolDb/Loader_sa.py:20 254: /build/reproducible-path/rdkit-202603.2/obj-x86_64-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) 254: decBase = declarative_base() 254: 254: -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 254: ======================== 12 passed, 1 warning in 10.21s ======================== 254/254 Test #254: pythonProjectTests ..................... Passed 10.54 sec 99% tests passed, 1 tests failed out of 254 Total Test time (real) = 79.59 sec The following tests FAILED: 94 - testSubstructMatch (Subprocess aborted) Errors while running CTest make[2]: *** [Makefile:94: test] Error 8 make[2]: Leaving directory '/build/reproducible-path/rdkit-202603.2/obj-x86_64-linux-gnu' dh_auto_test: error: cd obj-x86_64-linux-gnu && make -j6 test ARGS\+=--verbose ARGS\+=-j6 returned exit code 2 make[1]: *** [debian/rules:154: override_dh_auto_test] Error 25 make[1]: Leaving directory '/build/reproducible-path/rdkit-202603.2' make: *** [debian/rules:49: binary-indep] Error 2 dpkg-buildpackage: error: debian/rules binary-indep subprocess failed with exit status 2 -------------------------------------------------------------------------------- Build finished at 2026-05-14T09:23:02Z Finished -------- +------------------------------------------------------------------------------+ | Cleanup Thu, 14 May 2026 09:23:02 +0000 | +------------------------------------------------------------------------------+ Purging /build/reproducible-path Not cleaning session: cloned chroot in use E: Build failure (dpkg-buildpackage died with exit 2) +------------------------------------------------------------------------------+ | Summary Thu, 14 May 2026 09:23:06 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: all Build-Space: 5123844 Build-Time: 1081 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 7 Job: /srv/rebuilderd/tmp/rebuilderdHSU2j6/inputs/rdkit_202603.2-1.dsc Machine Architecture: amd64 Package: rdkit Package-Time: 1119 Source-Version: 202603.2-1 Space: 5123844 Status: attempted Version: 202603.2-1 -------------------------------------------------------------------------------- Finished at 2026-05-14T09:23:02Z Build needed 00:18:39, 5123844k disk space E: Build failure (dpkg-buildpackage died with exit 2) sbuild failed