Diff of the two buildlogs: -- --- b1/build.log 2024-01-09 17:57:55.964479942 +0000 +++ b2/build.log 2024-01-09 18:14:59.044050079 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Jan 9 05:29:03 -12 2024 -I: pbuilder-time-stamp: 1704821343 +I: Current time: Tue Feb 11 14:20:58 +14 2025 +I: pbuilder-time-stamp: 1739233258 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration @@ -18,7 +18,7 @@ I: copying [./rdkit_202009.4-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' -gpgv: keyblock resource '/tmp/dpkg-verify-sig.0glVERKO/trustedkeys.kbx': General error +gpgv: keyblock resource '/tmp/dpkg-verify-sig.hFIwLIQd/trustedkeys.kbx': General error gpgv: Signature made Sun Feb 21 10:42:16 2021 gpgv: using RSA key 9CA877749FAB2E4FA96862ECDC686A27B43481B0 gpgv: Can't check signature: No public key @@ -37,51 +37,82 @@ dpkg-source: info: applying sphinx_compile_fixes.patch I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/10559/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/110048/tmp/hooks/D01_modify_environment starting +debug: Running on ionos16-i386. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Feb 11 00:21 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/110048/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/110048/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='i386' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=8 ' - DISTRIBUTION='bullseye' - HOME='/root' - HOST_ARCH='i386' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") + BASH_VERSION='5.1.4(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=i386 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=15 ' + DIRSTACK=() + DISTRIBUTION=bullseye + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=i686 + HOST_ARCH=i386 IFS=' ' - INVOCATION_ID='853ecadcaff84218a3ff993810f920af' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - LD_LIBRARY_PATH='/usr/lib/libeatmydata' - LD_PRELOAD='libeatmydata.so' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='10559' - PS1='# ' - PS2='> ' + INVOCATION_ID=52000718388d4aa2b81073f87fd3d958 + LANG=C + LANGUAGE=de_CH:de + LC_ALL=C + LD_LIBRARY_PATH=/usr/lib/libeatmydata + LD_PRELOAD=libeatmydata.so + MACHTYPE=i686-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=110048 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.66C3z6rs/pbuilderrc_5TrO --distribution bullseye --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.66C3z6rs/b1 --logfile b1/build.log rdkit_202009.4-1.dsc' - SUDO_GID='112' - SUDO_UID='107' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://78.137.99.97:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.66C3z6rs/pbuilderrc_72KE --distribution bullseye --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.66C3z6rs/b2 --logfile b2/build.log rdkit_202009.4-1.dsc' + SUDO_GID=112 + SUDO_UID=107 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://85.184.249.68:3128 I: uname -a - Linux ionos2-i386 6.1.0-17-686-pae #1 SMP PREEMPT_DYNAMIC Debian 6.1.69-1 (2023-12-30) i686 GNU/Linux + Linux i-capture-the-hostname 6.1.0-17-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.69-1 (2023-12-30) x86_64 GNU/Linux I: ls -l /bin total 5776 -rwxr-xr-x 1 root root 1367848 Mar 27 2022 bash @@ -141,7 +172,7 @@ -rwxr-xr-x 1 root root 46984 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 22292 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Jan 7 09:24 sh -> dash + lrwxrwxrwx 1 root root 9 Feb 11 00:21 sh -> /bin/bash -rwxr-xr-x 1 root root 34696 Sep 22 2020 sleep -rwxr-xr-x 1 root root 83880 Sep 22 2020 stty -rwsr-xr-x 1 root root 79396 Jan 20 2022 su @@ -167,7 +198,7 @@ -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew -I: user script /srv/workspace/pbuilder/10559/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/110048/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -563,7 +594,7 @@ Get: 289 http://deb.debian.org/debian bullseye/main i386 texlive-latex-recommended all 2020.20210202-3 [14.5 MB] Get: 290 http://deb.debian.org/debian bullseye/main i386 texlive-pictures all 2020.20210202-3 [6743 kB] Get: 291 http://deb.debian.org/debian bullseye/main i386 texlive-latex-extra all 2020.20210202-3 [13.7 MB] -Fetched 317 MB in 25s (12.7 MB/s) +Fetched 317 MB in 5s (64.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 17763 files and directories currently installed.) @@ -1496,8 +1527,8 @@ Setting up tzdata (2021a-1+deb11u10) ... Current default time zone: 'Etc/UTC' -Local time is now: Tue Jan 9 17:30:47 UTC 2024. -Universal Time is now: Tue Jan 9 17:30:47 UTC 2024. +Local time is now: Tue Feb 11 00:22:03 UTC 2025. +Universal Time is now: Tue Feb 11 00:22:03 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20180224.1+nmu1) ... @@ -1834,7 +1865,11 @@ fakeroot is already the newest version (1.25.3-1.1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/reproducible-path/rdkit-202009.4/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../rdkit_202009.4-1_source.changes +I: user script /srv/workspace/pbuilder/110048/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for bullseye +I: user script /srv/workspace/pbuilder/110048/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/rdkit-202009.4/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../rdkit_202009.4-1_source.changes dpkg-buildpackage: info: source package rdkit dpkg-buildpackage: info: source version 202009.4-1 dpkg-buildpackage: info: source distribution unstable @@ -2102,7 +2137,7 @@ make[1]: Entering directory '/build/reproducible-path/rdkit-202009.4' dh_auto_build dh_auto_build: warning: Compatibility levels before 10 are deprecated (level 9 in use) - cd obj-i686-linux-gnu && make -j8 VERBOSE=1 + cd obj-i686-linux-gnu && make -j15 VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/rdkit-202009.4 -B/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/CMakeFiles /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu//CMakeFiles/progress.marks @@ -2121,40 +2156,40 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/External/RingFamilies /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/RingFamilies /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/DependInfo.cmake --color= Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/INCHI-API/CMakeFiles/inchi_support.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/INCHI-API/CMakeFiles/inchi_support.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/INCHI-API/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/INCHI-API/CMakeFiles/inchi_support.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/CMakeFiles/coordgen_support.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/CMakeFiles/coordgen_support.dir/depend.internal". 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Built target ringdecomposerlib_support make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 0%] Built target coordgen_support -[ 0%] Built target catch make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/depend make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/depend make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/depend @@ -2165,42 +2200,42 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/DependInfo.cmake --color= [ 0%] Built target inchi_support -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/RDGeneral.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/RDGeneral.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/RDGeneral.dir/depend.internal". 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-I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/Invariant.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDGeneral/Invariant.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDStreams && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RDSTREAMS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDStreams_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDStreams.dir/streams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDStreams/streams.cpp cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/types.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDGeneral/types.cpp cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/utils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDGeneral/utils.cpp -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDGeneral/LocaleSwitcher.cpp +[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDLog.cpp.o +[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/Invariant.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o 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-Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/versions.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDGeneral/versions.cpp +[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDGeneral/LocaleSwitcher.cpp [ 1%] Linking C shared library ../../../../lib/libRDKithc.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKithc.so.1 -o ../../../../lib/libRDKithc.so.1.2020.09.4 CMakeFiles/hc.dir/hc.c.o CMakeFiles/hc.dir/hcdriver.c.o -lpthread @@ -2224,145 +2259,187 @@ make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/depend make -f Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build.make Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/depend make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/depend -make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/EigenSolvers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/EigenSolvers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake --color= +make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/depend +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/RDBoost /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake --color= make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/RDGeneral /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/RDGeneral /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/DependInfo.cmake --color= -make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/RDGeneral /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testDict.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake --color= +make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Catalogs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake --color= +make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/depend +make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend +make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Query /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Query /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Query/CMakeFiles/testQuery.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataManip/MetricMatrixCalc /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/depend.internal". +Scanning dependencies of target testConcurrentQueue Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/depend.internal". -Scanning dependencies of target RDBoost +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build.make Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +Scanning dependencies of target testMatrices +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/depend.internal". Scanning dependencies of target EigenSolvers -Scanning dependencies of target testRDValue -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testDict.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testDict.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testDict.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/depend.internal". -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build -make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/build -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/depend.internal". -Scanning dependencies of target testConcurrentQueue -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -Scanning dependencies of target testMatrices +Scanning dependencies of target RDBoost +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/depend.internal". make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build.make Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build +make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Query/CMakeFiles/testQuery.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Query/CMakeFiles/testQuery.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Query/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Query/CMakeFiles/testQuery.dir/depend.internal". Scanning dependencies of target testDict -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend.internal". +Scanning dependencies of target testRDValue +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend.internal". make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/build +Scanning dependencies of target testMatCalc make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build +Scanning dependencies of target testQuery Scanning dependencies of target Catalogs -[ 1%] Building CXX object Code/RDBoost/CMakeFiles/RDBoost.dir/Wrap.cpp.o -[ 1%] Building CXX object Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/testRDValue.dir/testRDValue.cpp.o +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +Scanning dependencies of target SimDivPickers make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDBoost_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDBOOST_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDBoost.dir/Wrap.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.cpp -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DEigenSolvers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_EIGENSOLVERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/EigenSolvers/PowerEigenSolver.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/build make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/build +[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDGeneral/testConcurrentQueue.cpp make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testRDValue.dir/testRDValue.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDGeneral/testRDValue.cpp -Scanning dependencies of target DataStructs -[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/testDict.dir/testDict.cpp.o make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build -[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testDict.dir/testDict.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDGeneral/testDict.cpp +make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 1%] Building CXX object Code/Numerics/CMakeFiles/testMatrices.dir/testMatrices.cpp.o +[ 1%] Building CXX object Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DEigenSolvers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_EIGENSOLVERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/EigenSolvers/PowerEigenSolver.cpp make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMatrices.dir/testMatrices.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/testMatrices.cpp -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDGeneral/testConcurrentQueue.cpp +Scanning dependencies of target DataStructs +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build +[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/testDict.dir/testDict.cpp.o +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/testRDValue.dir/testRDValue.cpp.o +[ 1%] Building CXX object Code/RDBoost/CMakeFiles/RDBoost.dir/Wrap.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testRDValue.dir/testRDValue.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDGeneral/testRDValue.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testDict.dir/testDict.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDGeneral/testDict.cpp +[ 1%] Building CXX object Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDBoost_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDBOOST_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDBoost.dir/Wrap.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataManip/MetricMatrixCalc/testMatCalc.cpp [ 1%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/Catalog.cpp.o +[ 1%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o +[ 1%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogParams.cpp.o +[ 1%] Building CXX object Code/Query/CMakeFiles/testQuery.dir/test.cpp.o +[ 1%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Query && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testQuery.dir/test.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Query/test.cpp cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Catalogs.dir/Catalog.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Catalogs/Catalog.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Catalogs/CatalogParams.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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-I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/MaxMinPicker.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/HierarchicalClusterPicker.cpp [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitVect.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testQuery.dir/test.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Query/test.cpp [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/SparseBitVect.cpp -[ 2%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogParams.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Catalogs/CatalogParams.cpp -[ 2%] Linking CXX shared library ../../../lib/libRDKitEigenSolvers.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong 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cmake_link_script CMakeFiles/testMatCalc.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -o testMatCalc ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 2%] Built target EigenSolvers -[ 2%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Catalogs/CatalogEntry.cpp -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-202009.4/obj-i686-linux-gnu' -cd 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/Utils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Utils.cpp +[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/base64.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/base64.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/base64.cpp +[ 3%] Linking CXX executable testConcurrentQueue +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testConcurrentQueue.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -o testConcurrentQueue ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 2%] Building CXX object Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataManip/MetricMatrixCalc/testMatCalc.cpp -[ 2%] Linking CXX shared library ../../lib/libRDKitCatalogs.so +[ 3%] Built target testConcurrentQueue +[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitOps.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/BitOps.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/BitOps.cpp +[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/DiscreteDistMat.cpp +[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/DiscreteValueVect.cpp +[ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/FPBReader.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/FPBReader.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/FPBReader.cpp +[ 5%] Linking CXX shared library ../../lib/libRDKitSimDivPickers.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/SimDivPickers.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSimDivPickers.so.1 -o ../../lib/libRDKitSimDivPickers.so.1.2020.09.4 CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o ../../lib/libRDKithc.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitSimDivPickers.so.1.2020.09.4 ../../lib/libRDKitSimDivPickers.so.1 ../../lib/libRDKitSimDivPickers.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 5%] Built target SimDivPickers +[ 5%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/MultiFPBReader.cpp +[ 5%] Linking CXX shared library ../../lib/libRDKitCatalogs.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Catalogs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitCatalogs.so.1 -o ../../lib/libRDKitCatalogs.so.1.2020.09.4 CMakeFiles/Catalogs.dir/Catalog.cpp.o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 5%] Linking CXX shared library ../../../lib/libRDKitEigenSolvers.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitEigenSolvers.so.1 -o ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Catalogs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../lib/libRDKitCatalogs.so.1 ../../lib/libRDKitCatalogs.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 2%] Built target Catalogs -make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend +[ 5%] Built target Catalogs +make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend.internal". -Scanning dependencies of target SimDivPickers +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend.internal". +Scanning dependencies of target testSimDivPickers make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build +make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 2%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/DistPicker.cpp +[ 5%] Building CXX object Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/testPickers.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1 ../../../lib/libRDKitEigenSolvers.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 5%] Built target EigenSolvers In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -2384,165 +2461,55 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 2%] Linking CXX shared library ../../lib/libRDKitRDBoost.so +[ 5%] Linking CXX shared library ../../lib/libRDKitRDBoost.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDBoost.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDBoost.so.1 -o ../../lib/libRDKitRDBoost.so.1.2020.09.4 CMakeFiles/RDBoost.dir/Wrap.cpp.o ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../lib/libRDKitRDBoost.so.1 ../../lib/libRDKitRDBoost.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 2%] Built target RDBoost +[ 5%] Built target RDBoost make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake --color= +[ 5%] Linking CXX executable testMatrices +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatrices.dir/link.txt --verbose=1 Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend.internal". 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Scanning dependencies of target rdBase make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 2%] Building CXX object Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/RDBase.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdBase_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdBase.dir/RDBase.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap/RDBase.cpp -[ 2%] Linking CXX executable testMatrices -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatrices.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMatrices.dir/testMatrices.cpp.o -o testMatrices ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 2%] Built target testMatrices -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/depend.internal". Scanning dependencies of target Clustering make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build +[ 5%] Building CXX object Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/RDBase.cpp.o make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 2%] Building CXX object Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/Clustering.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdBase_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdBase.dir/RDBase.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap/RDBase.cpp +[ 5%] Building CXX object Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/Clustering.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DClustering_EXPORTS -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -o testMatCalc ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 3%] Built target testMatCalc -[ 3%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/MaxMinPicker.cpp -[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/HierarchicalClusterPicker.cpp -[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/Utils.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/Utils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Utils.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap/RDBase.cpp:10: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 4%] Linking CXX shared library ../../lib/libRDKitSimDivPickers.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/SimDivPickers.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSimDivPickers.so.1 -o ../../lib/libRDKitSimDivPickers.so.1.2020.09.4 CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o ../../lib/libRDKithc.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitSimDivPickers.so.1.2020.09.4 ../../lib/libRDKitSimDivPickers.so.1 ../../lib/libRDKitSimDivPickers.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 4%] Linking CXX executable testQuery -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Query && /usr/bin/cmake -E cmake_link_script CMakeFiles/testQuery.dir/link.txt --verbose=1 -[ 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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake --color= -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testQuery.dir/test.cpp.o -o testQuery ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend.internal". -Scanning dependencies of target testSimDivPickers -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 4%] Building CXX object Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/testPickers.cpp -[ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/base64.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS 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Built target testQuery -In file included from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap/RDBase.cpp:14: -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 285 | if (df_isTextMode && c > STD_ASCII) { - | ~~^~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 297 | if ((!df_isTextMode || c <= STD_ASCII) && - | ~~^~~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 308 | if (df_isTextMode && c > STD_ASCII && - | ~~^~~~~~~~~~~ -[ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitOps.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/BitOps.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/BitOps.cpp -[ 5%] Linking CXX executable testRDValue -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRDValue.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/DiscreteDistMat.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/ML/Cluster/Murtagh/Clustering.cpp:12: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 5%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/FPBReader.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/FPBReader.cpp -[ 6%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/MultiFPBReader.cpp -[ 6%] Linking CXX shared module ../../../../rdkit/ML/Cluster/Clustering.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/ML/Cluster/Clustering.so CMakeFiles/Clustering.dir/Clustering.cpp.o ../../../../lib/libRDKithc.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so -lpthread make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 6%] Built target Clustering -[ 6%] Linking CXX executable testSimDivPickers +[ 5%] Built target testMatrices +[ 5%] Linking CXX executable testSimDivPickers cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSimDivPickers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testSimDivPickers.dir/testPickers.cpp.o -o testSimDivPickers ../../lib/libRDKitSimDivPickers.so.1.2020.09.4 ../../lib/libRDKithc.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 6%] Built target testSimDivPickers -[ 6%] Linking CXX executable testDict -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDict.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testDict.dir/testDict.cpp.o -o testDict ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 5%] Built target testSimDivPickers +[ 5%] Linking CXX executable testQuery +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Query && /usr/bin/cmake -E cmake_link_script CMakeFiles/testQuery.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testQuery.dir/test.cpp.o -o testQuery ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 6%] Built target testDict -[ 6%] Linking CXX shared library ../../lib/libRDKitDataStructs.so +[ 5%] Built target testQuery +[ 5%] Linking CXX shared library ../../lib/libRDKitDataStructs.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/DataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDataStructs.so.1 -o ../../lib/libRDKitDataStructs.so.1.2020.09.4 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 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1 ../../lib/libRDKitDataStructs.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 6%] Built target DataStructs +[ 5%] Built target DataStructs make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/depend make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/depend make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/depend @@ -2550,76 +2517,102 @@ 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-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake --color= cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/RDGeometryLib.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake --color= 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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake --color= make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs 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/build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend.internal". -Dependee 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depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend.internal". +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend.internal". +Dependee 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Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/RDGeometryLib.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/RDGeometryLib.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/RDGeometryLib.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend.internal". -Scanning dependencies of target testMultiFPB -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/depend.internal". Scanning dependencies of target testFPB -Scanning dependencies of target pickersTestsCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +Scanning dependencies of target testMultiFPB make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' Scanning dependencies of target testDataStructs -[ 6%] Building CXX object Code/DataStructs/CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o +Scanning dependencies of target rdMetricMatrixCalc +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +Scanning dependencies of target InfoTheory +make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/testMultiFPB.cpp -Scanning dependencies of target rdMetricMatrixCalc -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build -[ 6%] Building CXX object Code/DataStructs/CMakeFiles/testFPB.dir/testFPB.cpp.o -[ 6%] Building CXX object Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testFPB.dir/testFPB.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/testFPB.cpp -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/catch_tests.cpp -Scanning dependencies of target RDGeometryLib +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +Scanning dependencies of target RDGeometryLib make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/build +Scanning dependencies of target pickersTestsCatch +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 6%] Building CXX object Code/DataStructs/CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/testDatastructs.cpp Scanning dependencies of target cDataStructs -[ 6%] Building CXX object Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/c++ 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-I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/testDatastructs.cpp +[ 5%] Building CXX object Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o +[ 5%] Building CXX object Code/DataStructs/CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o +[ 5%] Building CXX object Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testFPB.dir/testFPB.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/testFPB.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DInfoTheory_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_INFOTHEORY_BUILD 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-DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/testMultiFPB.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMetricMatrixCalc_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp +[ 5%] Building 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-Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/point.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/point.cpp -[ 7%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DataStructs.cpp.o +Scanning dependencies of target rdSimDivPickers +[ 5%] Building CXX object Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/Transform2D.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/Transform3D.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/catch_tests.cpp +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 6%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DataStructs.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/DataStructs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/DataStructs.cpp +[ 6%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/MaxMinPicker.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -2633,16 +2626,14 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/reproducible-path/rdkit-202009.4/Code/ML/Cluster/Murtagh/Clustering.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 7%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/Transform2D.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -2657,76 +2648,44 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/DataStructs.cpp:13: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap/RDBase.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/rdkit-202009.4/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp:15: -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h: In member function 'T PySequenceHolder::operator[](unsigned int) const [with T = double]': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h:68:9: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 68 | T res = python::extract(d_seq[which]); - | ^~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 186 | off_type py_pos = bp::extract(py_tell()); - | ^ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 156 | off_type py_pos = bp::extract(py_tell()); - | ^ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 404 | result = off_type(bp::extract(py_tell())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 7%] Linking CXX executable testFPB -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFPB.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testFPB.dir/testFPB.cpp.o -o testFPB ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 7%] Built target testFPB -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend.internal". -Scanning dependencies of target rdSimDivPickers -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 7%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/MaxMinPicker.cpp -[ 7%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/Transform3D.cpp -[ 7%] Linking CXX shared module ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 7%] Built target rdMetricMatrixCalc -make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/depend.internal". -Scanning dependencies of target InfoTheory +[ 7%] Linking CXX executable testRDValue +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRDValue.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testRDValue.dir/testRDValue.cpp.o -o testRDValue ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 7%] Building CXX object Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DInfoTheory_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_INFOTHEORY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/InfoBitRanker.cpp +[ 7%] Built target testRDValue [ 7%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/DiscreteValueVect.cpp -[ 7%] Linking CXX executable testMultiFPB -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultiFPB.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -o testMultiFPB ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +In file included from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap/RDBase.cpp:14: +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 285 | if (df_isTextMode && c > STD_ASCII) { + | ~~^~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 297 | if ((!df_isTextMode || c <= STD_ASCII) && + | ~~^~~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 308 | if (df_isTextMode && c > STD_ASCII && + | ~~^~~~~~~~~~~ +[ 7%] Linking CXX shared module ../../../../rdkit/ML/Cluster/Clustering.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/ML/Cluster/Clustering.so CMakeFiles/Clustering.dir/Clustering.cpp.o ../../../../lib/libRDKithc.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so -lpthread make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 7%] Built target testMultiFPB +[ 7%] Built target Clustering [ 7%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/SparseIntVect.cpp [ 7%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/UniformGrid3D.cpp -[ 7%] Linking CXX shared library ../../../lib/libRDKitInfoTheory.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_link_script CMakeFiles/InfoTheory.dir/link.txt --verbose=1 +[ 8%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/GridUtils.cpp +[ 8%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_SparseBV.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -2748,7 +2707,11 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 8%] Linking CXX shared library ../../../lib/libRDKitInfoTheory.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitInfoTheory.so.1 -o ../../../lib/libRDKitInfoTheory.so.1.2020.09.4 CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitInfoTheory.so.1.2020.09.4 ../../../lib/libRDKitInfoTheory.so.1 ../../../lib/libRDKitInfoTheory.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -2763,26 +2726,24 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/DiscreteValueVect.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitInfoTheory.so.1.2020.09.4 ../../../lib/libRDKitInfoTheory.so.1 ../../../lib/libRDKitInfoTheory.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 7%] Built target InfoTheory +[ 8%] Built target InfoTheory 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake --color= +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend.internal". Scanning dependencies of target rdInfoTheory make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 7%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o +[ 8%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, @@ -2798,52 +2759,18 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/SparseIntVect.cpp:11: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 8%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/GridUtils.cpp -[ 8%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_SparseBV.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/MaxMinPicker.cpp:19: -/build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/PickerHelpers.h: In function 'RDKit::INT_VECT RDPickers::MaxMinPicker::lazyPick(T&, unsigned int, unsigned int, const INT_VECT&, int, double&) const [with T = pyobjFunctor]': -/build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/PickerHelpers.h:53:48: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 53 | return python::extract(dp_obj(i, j)); - | ^ -/build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/PickerHelpers.h:53:48: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 53 | return python::extract(dp_obj(i, j)); - | ^ -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/DataStructs.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 8%] Linking CXX shared library ../../lib/libRDKitRDGeometryLib.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeometryLib.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDGeometryLib.so.1 -o ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 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/GridUtils.cpp.o ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1 ../../lib/libRDKitRDGeometryLib.so +[ 8%] Linking CXX executable testDict +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDict.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testDict.dir/testDict.cpp.o -o testDict ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 8%] Built target RDGeometryLib +[ 8%] Built target testDict 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/Data /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Data /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake --color= @@ -2855,24 +2782,6 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 8%] Building CXX object Code/ML/Data/CMakeFiles/cQuantize.dir/cQuantize.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Data && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcQuantize_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cQuantize.dir/cQuantize.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ML/Data/cQuantize.cpp -[ 8%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/LeaderPicker.cpp -[ 9%] Linking CXX executable testDataStructs -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDataStructs.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -o testDataStructs ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 9%] Built target testDataStructs -make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend.internal". -Scanning dependencies of target ChemicalFeatures -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 9%] Building CXX object Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemicalFeatures_EXPORTS -DRDKIT_CHEMICALFEATURES_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures/FreeChemicalFeature.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -2886,16 +2795,14 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_SparseBV.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/DiscreteValueVect.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 9%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -2909,31 +2816,88 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/ML/Data/cQuantize.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/SparseIntVect.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 9%] Linking CXX shared library ../../lib/libRDKitChemicalFeatures.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemicalFeatures.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitChemicalFeatures.so.1 -o ../../lib/libRDKitChemicalFeatures.so.1.2020.09.4 CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitChemicalFeatures.so.1.2020.09.4 ../../lib/libRDKitChemicalFeatures.so.1 ../../lib/libRDKitChemicalFeatures.so +In file included from /build/reproducible-path/rdkit-202009.4/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp:15: +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h: In member function 'T PySequenceHolder::operator[](unsigned int) const [with T = double]': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h:68:9: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 68 | T res = python::extract(d_seq[which]); + | ^~~ +[ 8%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.cpp +[ 8%] Linking CXX shared library ../../lib/libRDKitRDGeometryLib.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeometryLib.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRDGeometryLib.so.1 -o ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 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/GridUtils.cpp.o ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 8%] Linking CXX executable testFPB +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFPB.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testFPB.dir/testFPB.cpp.o -o testFPB ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 8%] Linking CXX executable testMultiFPB +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1 ../../lib/libRDKitRDGeometryLib.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultiFPB.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMultiFPB.dir/testMultiFPB.cpp.o -o testMultiFPB ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 9%] Built target ChemicalFeatures +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 8%] Built target RDGeometryLib make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Alignment.dir/AlignPoints.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/Alignment/AlignPoints.cpp +[ 8%] Linking CXX shared module ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMetricMatrixCalc.dir/link.txt --verbose=1 +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 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+Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend.internal". +[ 8%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Atom.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Atom.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Atom.cpp +Scanning dependencies of target geometryTestsCatch +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 8%] Building CXX object Code/Geometry/CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/catch_tests.cpp +[ 8%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_ExplicitBV.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 8%] Built target rdMetricMatrixCalc +make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/depend.internal". +Scanning dependencies of target testGrid +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 8%] Building CXX object Code/Geometry/CMakeFiles/testGrid.dir/testGrid.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testGrid.dir/testGrid.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/testGrid.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -2947,22 +2911,15 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/LeaderPicker.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_SparseBV.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 9%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_ExplicitBV.cpp -[ 9%] Linking CXX shared module ../../../rdkit/ML/Data/cQuantize.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Data && /usr/bin/cmake -E cmake_link_script CMakeFiles/cQuantize.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/ML/Data/cQuantize.so CMakeFiles/cQuantize.dir/cQuantize.cpp.o ../../../lib/libRDKitInfoTheory.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so -lpthread -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 9%] Built target cQuantize -[ 9%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o +[ 8%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_BitOps.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, @@ -2978,32 +2935,51 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/LeaderPicker.cpp:19: -/build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/PickerHelpers.h: In member function 'unsigned int RDPickers::LeaderPickerState::compact(int*, int*, unsigned int) [with T = pyobjFunctor]': +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/reproducible-path/rdkit-202009.4/Code/ML/Data/cQuantize.cpp:11: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/MaxMinPicker.cpp:19: +/build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/PickerHelpers.h: In function 'RDKit::INT_VECT RDPickers::MaxMinPicker::lazyPick(T&, unsigned int, unsigned int, const INT_VECT&, int, double&) const [with T = pyobjFunctor]': /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/PickerHelpers.h:53:48: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] 53 | return python::extract(dp_obj(i, j)); | ^ -[ 9%] Linking CXX shared module ../../../rdkit/rdBase.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/rdBase.so CMakeFiles/rdBase.dir/RDBase.cpp.o ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so -lpthread -[ 9%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 9%] Built target rdBase -[ 9%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_FPB.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/SparseIntVect.cpp:18: -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h: In member function 'T PySequenceHolder::operator[](unsigned int) const [with T = long long int]': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h:68:9: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 68 | T res = python::extract(d_seq[which]); - | ^~~ +/build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/PickerHelpers.h:53:48: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 53 | return python::extract(dp_obj(i, j)); + | ^ +[ 8%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/LeaderPicker.cpp +[ 8%] Linking CXX shared library ../../../lib/libRDKitAlignment.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitAlignment.so.1 -o ../../../lib/libRDKitAlignment.so.1.2020.09.4 CMakeFiles/Alignment.dir/AlignPoints.cpp.o ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 8%] Linking CXX shared module ../../../rdkit/ML/Data/cQuantize.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Data && /usr/bin/cmake -E cmake_link_script CMakeFiles/cQuantize.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/ML/Data/cQuantize.so CMakeFiles/cQuantize.dir/cQuantize.cpp.o ../../../lib/libRDKitInfoTheory.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so -lpthread +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1 ../../../lib/libRDKitAlignment.so In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3018,17 +2994,39 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_BitOps.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h: In member function 'T PySequenceHolder::operator[](unsigned int) const [with T = long long unsigned int]': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h:68:9: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 68 | T res = python::extract(d_seq[which]); - | ^~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 8%] 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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/depend.internal". +Scanning dependencies of target testTransforms +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 8%] Building CXX object Code/Geometry/CMakeFiles/testTransforms.dir/testTransforms.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testTransforms.dir/testTransforms.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/testTransforms.cpp +[ 8%] Built target cQuantize +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend.internal". +Scanning dependencies of target rdGeometry +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 8%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdGeometry.dir/Point.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/Wrap/Point.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3050,7 +3048,9 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 9%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o +[ 8%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_FPB.cpp +[ 8%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdInfoTheory_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, @@ -3066,13 +3066,40 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp:13: + from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_BitOps.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 8%] Linking CXX executable testGrid +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGrid.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testGrid.dir/testGrid.cpp.o -o testGrid ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 8%] Built target testGrid +make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/depend +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/depend.internal". +Scanning dependencies of target testConrec +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 8%] Building CXX object Code/Numerics/CMakeFiles/testConrec.dir/testConrec.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testConrec.dir/testConrec.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/testConrec.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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Alignment /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend.internal". +Scanning dependencies of target testAlignment +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 8%] Building CXX object Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/testAlignment.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testAlignment.dir/testAlignment.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/Alignment/testAlignment.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3086,20 +3113,25 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_FPB.cpp:10: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/LeaderPicker.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 9%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryAtom.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/QueryAtom.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/QueryAtom.cpp -[ 9%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_Utils.cpp -[ 10%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 186 | off_type py_pos = bp::extract(py_tell()); + | ^ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 156 | off_type py_pos = bp::extract(py_tell()); + | ^ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 404 | result = off_type(bp::extract(py_tell())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3113,32 +3145,16 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/Geometry/Wrap/Point.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryBond.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/QueryBond.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/QueryBond.cpp -[ 10%] Linking CXX shared module ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o ../../../../lib/libRDKitInfoTheory.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 10%] Built target rdInfoTheory -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Alignment /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend.internal". -Scanning dependencies of target Alignment -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 10%] Building CXX object Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment && /usr/bin/c++ -DAlignment_EXPORTS -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_ALIGNMENT_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Alignment.dir/AlignPoints.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/Alignment/AlignPoints.cpp +[ 8%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DcDataStructs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_Utils.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3153,7 +3169,7 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_Utils.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_FPB.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -3174,111 +3190,20 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 10%] Linking CXX shared module ../../../rdkit/SimDivFilters/rdSimDivPickers.so -make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSimDivPickers.dir/link.txt --verbose=1 -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry 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/usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend.internal". -Scanning dependencies of target geometryTestsCatch -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 10%] Building CXX object Code/Geometry/CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/catch_tests.cpp -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 10%] Built target rdSimDivPickers -make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/depend.internal". -Scanning dependencies of target testGrid -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 10%] Building CXX object Code/Geometry/CMakeFiles/testGrid.dir/testGrid.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testGrid.dir/testGrid.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/testGrid.cpp -[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Bond.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/depend.internal". -Scanning dependencies of target testTransforms -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 10%] Building CXX object Code/Geometry/CMakeFiles/testTransforms.dir/testTransforms.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testTransforms.dir/testTransforms.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/testTransforms.cpp -[ 10%] Linking CXX shared library ../../../lib/libRDKitAlignment.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitAlignment.so.1 -o ../../../lib/libRDKitAlignment.so.1.2020.09.4 CMakeFiles/Alignment.dir/AlignPoints.cpp.o ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1 ../../../lib/libRDKitAlignment.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 10%] Built target Alignment -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend.internal". -Scanning dependencies of target rdGeometry -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 10%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdGeometry.dir/Point.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/Wrap/Point.cpp -[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolOps.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/MolOps.cpp.o -c 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Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/depend.internal". -Scanning dependencies of target testConrec -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 10%] Building CXX object Code/Numerics/CMakeFiles/testConrec.dir/testConrec.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testConrec.dir/testConrec.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/testConrec.cpp -[ 10%] Linking CXX executable testGrid -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGrid.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testGrid.dir/testGrid.cpp.o -o testGrid ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 10%] Built target testGrid -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Alignment /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend.internal". -Scanning dependencies of target testAlignment -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 10%] Building CXX object Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/testAlignment.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testAlignment.dir/testAlignment.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/Alignment/testAlignment.cpp -[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindRings.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/FindRings.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FindRings.cpp -[ 10%] Linking CXX executable testTransforms +[ 8%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryAtom.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/QueryAtom.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/QueryAtom.cpp +[ 8%] Linking CXX executable testTransforms cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/testTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testTransforms.dir/testTransforms.cpp.o -o testTransforms ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 10%] Built target testTransforms +[ 8%] Built target testTransforms 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Alignment/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake --color= @@ -3288,8 +3213,49 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 10%] Building CXX object Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o +[ 8%] Building CXX object Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o cd 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/build/reproducible-path/rdkit-202009.4/Code/Numerics/Alignment/Wrap/rdAlignment.cpp +[ 9%] Linking CXX executable testDataStructs +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDataStructs.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -o testDataStructs ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 9%] Built target testDataStructs +make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend.internal". +Scanning dependencies of target ChemicalFeatures +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 9%] Building CXX object Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemicalFeatures_EXPORTS -DRDKIT_CHEMICALFEATURES_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures/FreeChemicalFeature.cpp +In file included from /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/LeaderPicker.cpp:19: +/build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/PickerHelpers.h: In member function 'unsigned int RDPickers::LeaderPickerState::compact(int*, int*, unsigned int) [with T = pyobjFunctor]': +/build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/PickerHelpers.h:53:48: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 53 | return python::extract(dp_obj(i, j)); + | ^ +[ 9%] Linking CXX shared module ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o ../../../../lib/libRDKitInfoTheory.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 9%] Linking CXX executable testAlignment +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAlignment.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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-DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/QueryBond.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/QueryBond.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 9%] Built target testAlignment +[ 9%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Bond.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Bond.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Bond.cpp +[ 9%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp +[ 9%] Linking CXX shared library ../../lib/libRDKitChemicalFeatures.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemicalFeatures.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitChemicalFeatures.so.1 -o ../../lib/libRDKitChemicalFeatures.so.1.2020.09.4 CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitChemicalFeatures.so.1.2020.09.4 ../../lib/libRDKitChemicalFeatures.so.1 ../../lib/libRDKitChemicalFeatures.so In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3303,19 +3269,16 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/Geometry/Wrap/Point.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/wrap_Utils.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 11%] Linking CXX shared module ../../../rdkit/DataStructs/cDataStructs.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/DataStructs/cDataStructs.so CMakeFiles/cDataStructs.dir/DataStructs.cpp.o CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o CMakeFiles/cDataStructs.dir/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.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 11%] Built target cDataStructs +[ 9%] Built target ChemicalFeatures make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake --color= @@ -3325,19 +3288,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 11%] Building CXX object Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o +[ 9%] Building CXX object Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures/testChemicalFeatures.cpp -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FindRings.cpp: In function 'void RDKit::MolOps::findRingFamilies(const RDKit::ROMol&)': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FindRings.cpp:1367:36: warning: unused parameter 'mol' [-Wunused-parameter] - 1367 | void findRingFamilies(const ROMol &mol) { - | ~~~~~~~~~~~~~^~~ -[ 11%] Linking CXX executable testAlignment -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAlignment.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testAlignment.dir/testAlignment.cpp.o -o testAlignment ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 11%] Built target testAlignment -[ 11%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/ROMol.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ROMol.cpp +In file included from /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap/SparseIntVect.cpp:18: +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h: In member function 'T PySequenceHolder::operator[](unsigned int) const [with T = long long int]': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h:68:9: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 68 | T res = python::extract(d_seq[which]); + | ^~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3359,39 +3316,68 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 11%] Linking CXX executable testChemicalFeatures -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemicalFeatures.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -o testChemicalFeatures ../../lib/libRDKitChemicalFeatures.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 11%] Built target testChemicalFeatures -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/RWMol.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RWMol.cpp +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h: In member function 'T PySequenceHolder::operator[](unsigned int) const [with T = long long unsigned int]': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h:68:9: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 68 | T res = python::extract(d_seq[which]); + | ^~~ +[ 9%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolOps.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/MolOps.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolOps.cpp +[ 9%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/Wrap/UniformGrid3D.cpp +[ 9%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindRings.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/FindRings.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FindRings.cpp +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp:13: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/rdkit-202009.4/Code/Numerics/Alignment/Wrap/rdAlignment.cpp:16: /build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h: In member function 'T PySequenceHolder::operator[](unsigned int) const [with T = double]': /build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h:68:9: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ -[ 12%] Linking CXX shared module ../../../../rdkit/Numerics/rdAlignment.so +[ 9%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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--verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -o testChemicalFeatures ../../lib/libRDKitChemicalFeatures.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 9%] Built target testChemicalFeatures +[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD 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/build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Numerics/rdAlignment.so CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o ../../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 12%] Built target rdAlignment -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o +[ 10%] Built target rdAlignment +[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/PeriodicTable.cpp -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o +[ 11%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSimDivPickers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp +[ 11%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/atomic_data.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/atomic_data.cpp -[ 12%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/Wrap/UniformGrid3D.cpp -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/QueryOps.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/QueryOps.cpp -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/MolPickler.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Canon.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Canon.cpp -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/AtomIterators.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/AtomIterators.cpp -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/BondIterators.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/BondIterators.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/BondIterators.cpp +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FindRings.cpp: In function 'void RDKit::MolOps::findRingFamilies(const RDKit::ROMol&)': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FindRings.cpp:1367:36: warning: unused parameter 'mol' [-Wunused-parameter] + 1367 | void findRingFamilies(const ROMol &mol) { + | ~~~~~~~~~~~~~^~~ +[ 12%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/Wrap/rdGeometry.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3413,30 +3399,47 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp: In instantiation of 'static RDKit::Atom* RDKit::MolPickler::_addAtomFromPickle(std::istream&, RDKit::ROMol*, RDGeom::Point3D&, int, bool) [with T = int; std::istream = std::basic_istream]': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:1139:39: required from 'static void RDKit::MolPickler::_depickle(std::istream&, RDKit::ROMol*, int, int) [with T = int; std::istream = std::basic_istream]' -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:928:59: required from here -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:1684:37: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 1684 | if ((tmpChar < 0 || tmpChar > 127) && version > 9000) { - | ~~~~~~~~^~~~~ -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp: In instantiation of 'static RDKit::Atom* RDKit::MolPickler::_addAtomFromPickle(std::istream&, RDKit::ROMol*, RDGeom::Point3D&, int, bool) [with T = unsigned char; std::istream = std::basic_istream]': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:1139:39: required from 'static void RDKit::MolPickler::_depickle(std::istream&, RDKit::ROMol*, int, int) [with T = unsigned char; std::istream = std::basic_istream]' -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:930:65: required from here -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:1684:37: warning: comparison is always false due to limited range of data type [-Wtype-limits] -[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Aromaticity.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Aromaticity.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Aromaticity.cpp -[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Kekulize.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Kekulize.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Kekulize.cpp -[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolDiscriminators.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/MolDiscriminators.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDiscriminators.cpp -[ 14%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdGeometry_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Geometry/Wrap/rdGeometry.cpp -[ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ConjugHybrid.cpp -[ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AddHs.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/AddHs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/AddHs.cpp -[ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Matrices.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Matrices.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Matrices.cpp +[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/QueryOps.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/QueryOps.cpp +[ 13%] Linking CXX shared module ../../../rdkit/DataStructs/cDataStructs.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/DataStructs/cDataStructs.so CMakeFiles/cDataStructs.dir/DataStructs.cpp.o CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o CMakeFiles/cDataStructs.dir/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.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp:12: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 13%] Built target cDataStructs +[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/MolPickler.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp +[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Canon.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Canon.cpp +[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/AtomIterators.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/AtomIterators.cpp +[ 13%] Linking CXX shared module ../../../rdkit/SimDivFilters/rdSimDivPickers.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/SimDivFilters/rdSimDivPickers.so CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o ../../../lib/libRDKitSimDivPickers.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKithc.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 13%] Built target rdSimDivPickers +[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/BondIterators.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/BondIterators.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/BondIterators.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3458,15 +3461,42 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Aromaticity.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Aromaticity.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Aromaticity.cpp +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp: In instantiation of 'static RDKit::Atom* RDKit::MolPickler::_addAtomFromPickle(std::istream&, RDKit::ROMol*, RDGeom::Point3D&, int, bool) [with T = int; std::istream = std::basic_istream]': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:1139:39: required from 'static void RDKit::MolPickler::_depickle(std::istream&, RDKit::ROMol*, int, int) [with T = int; std::istream = std::basic_istream]' +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:928:59: required from here +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:1684:37: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 1684 | if ((tmpChar < 0 || tmpChar > 127) && version > 9000) { + | ~~~~~~~~^~~~~ +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp: In instantiation of 'static RDKit::Atom* RDKit::MolPickler::_addAtomFromPickle(std::istream&, RDKit::ROMol*, RDGeom::Point3D&, int, bool) [with T = unsigned char; std::istream = std::basic_istream]': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:1139:39: required from 'static void RDKit::MolPickler::_depickle(std::istream&, RDKit::ROMol*, int, int) [with T = unsigned char; std::istream = std::basic_istream]' +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:930:65: required from here +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:1684:37: warning: comparison is always false due to limited range of data type [-Wtype-limits] +[ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Kekulize.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Kekulize.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Kekulize.cpp [ 14%] Linking CXX shared module ../../../rdkit/Geometry/rdGeometry.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Geometry/rdGeometry.so CMakeFiles/rdGeometry.dir/Point.cpp.o CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolDiscriminators.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/MolDiscriminators.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDiscriminators.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 14%] Built target rdGeometry +[ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/ConjugHybrid.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ConjugHybrid.cpp +[ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AddHs.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/AddHs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/AddHs.cpp +[ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Matrices.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Matrices.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Matrices.cpp [ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Chirality.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Chirality.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Chirality.cpp [ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RingInfo.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/RingInfo.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RingInfo.cpp +[ 14%] Linking CXX shared module ../../../rdkit/rdBase.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/rdBase.so CMakeFiles/rdBase.dir/RDBase.cpp.o ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so -lpthread make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 14%] Built target rdGeometry +[ 14%] Built target rdBase [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Conformer.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/Conformer.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Conformer.cpp [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Renumber.cpp.o @@ -3479,6 +3509,10 @@ cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/StereoGroup.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/StereoGroup.cpp [ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/new_canon.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/new_canon.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/new_canon.cpp +[ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstanceGroup.cpp +[ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindStereo.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/FindStereo.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FindStereo.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3494,26 +3528,17 @@ /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -[ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstanceGroup.cpp -[ 15%] Linking CXX executable geometryTestsCatch -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/geometryTestsCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o -o geometryTestsCatch ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 15%] Built target geometryTestsCatch -[ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindStereo.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 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../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 15%] Linking CXX executable pickersTestsCatch +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/pickersTestsCatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o -o pickersTestsCatch ../../lib/libRDKitSimDivPickers.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKithc.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 16%] Built target testConrec -[ 17%] Linking CXX shared library ../../lib/libRDKitGraphMol.so +[ 15%] Built target pickersTestsCatch +[ 16%] Linking CXX shared library ../../lib/libRDKitGraphMol.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/GraphMol.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitGraphMol.so.1 -o ../../lib/libRDKitGraphMol.so.1.2020.09.4 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/MolDiscriminators.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 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1 ../../lib/libRDKitGraphMol.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 17%] Built target GraphMol +[ 16%] Built target GraphMol make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend @@ -3524,185 +3549,255 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/PartialCharges /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend.internal". -Scanning dependencies of target PartialCharges +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend.internal". Scanning dependencies of target Trajectory make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend.internal". -make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build +make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +Scanning dependencies of target PartialCharges make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.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-202009.4/obj-i686-linux-gnu' Scanning dependencies of target MolCatalog Scanning dependencies of target SubstructMatch +Scanning dependencies of target MolInterchange +Scanning dependencies of target rdChemicalFeatures +Scanning dependencies of target rdqueries Scanning dependencies of target Subgraphs make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build +make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build +make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build +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-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 18%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o -[ 18%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/Trajectory.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/PartialCharges/GasteigerCharges.cpp +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +Scanning dependencies of target SLNParse +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build +[ 16%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/Trajectory.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_TRAJECTORY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DTrajectory_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Trajectory.dir/Trajectory.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Trajectory/Trajectory.cpp +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 16%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o +[ 17%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/PartialCharges/GasteigerCharges.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/PartialCharges/GasteigerParams.cpp +[ 17%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Parser.cpp.o +[ 17%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolInterchange_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLINTERCHANGE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/rapidjson -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolInterchange.dir/Parser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange/Parser.cpp +[ 17%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o Scanning dependencies of target SmilesParse -[ 18%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 18%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o -make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog/MolCatalogEntry.cpp -[ 18%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o +[ 17%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructMatch_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include 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-I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/Mancude.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Mancude.cpp -[ 20%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_32BIT_BUILD 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-DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms/MolTransforms.cpp +[ 18%] Linking CXX executable geometryTestsCatch +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/geometryTestsCatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o -o geometryTestsCatch ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 20%] Built target MolCatalog -[ 20%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Digraph.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/Digraph.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Digraph.cpp -[ 20%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK 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20%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/SmilesParseOps.cpp -[ 20%] Linking CXX shared library ../../../lib/libRDKitPartialCharges.so +[ 18%] Built target geometryTestsCatch +[ 18%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures/Wrap/FreeChemicalFeature.cpp +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdqueries.cpp:12: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 18%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructMatch_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Substruct/SubstructUtils.cpp +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures/Wrap/rdChemicalFeatures.cpp:12: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 18%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPLabeler.cpp +[ 19%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Mancude.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/Mancude.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Mancude.cpp +[ 19%] Linking CXX shared library ../../../lib/libRDKitPartialCharges.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitPartialCharges.so.1 -o ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1 ../../../lib/libRDKitPartialCharges.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 20%] Built target PartialCharges -[ 20%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/SmilesWrite.cpp -[ 20%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Node.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/Node.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Node.cpp -[ 20%] Linking CXX shared library ../../../lib/libRDKitMolTransforms.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolTransforms.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolTransforms.so.1 -o ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1 ../../../lib/libRDKitMolTransforms.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 20%] Built target MolTransforms -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange 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'/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build +[ 19%] Built target PartialCharges +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-202009.4/obj-i686-linux-gnu' -[ 20%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Parser.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolInterchange_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLINTERCHANGE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/rapidjson -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolInterchange.dir/Parser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange/Parser.cpp -[ 20%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Writer.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolInterchange_EXPORTS -DRDKIT_DYN_LINK 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Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Edge.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC 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-Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Substruct/SubstructUtils.cpp -[ 20%] Linking CXX shared library ../../../lib/libRDKitSubgraphs.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubgraphs.so.1 -o ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -[ 20%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Sort.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/Sort.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Sort.cpp -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1 ../../../lib/libRDKitSubgraphs.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/PartialCharges/Wrap 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Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 20%] Built target Subgraphs -make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/depend +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/DependInfo.cmake --color= -Dependee 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-DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdPartialCharges_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/PartialCharges/Wrap/rdPartialCharges.cpp +[ 20%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog/MolCatalogParams.cpp +[ 20%] 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cmake_symlink_library ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1 ../../../lib/libRDKitTrajectory.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build +[ 20%] Built target Trajectory +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-202009.4/obj-i686-linux-gnu' -[ 20%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNParse.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/SLNParse.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/SLNParse.cpp -[ 20%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ 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-Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp -[ 20%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp -[ 20%] Linking CXX shared library ../../../lib/libRDKitSubstructMatch.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubstructMatch.so.1 -o ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1 ../../../lib/libRDKitSubstructMatch.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend.internal". +Scanning dependencies of target Optimizer make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 20%] Built target SubstructMatch -make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend.internal". -Scanning dependencies of target rdqueries +[ 20%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer/BFGSOpt.cpp +[ 20%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/Queries.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdqueries_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdqueries.dir/Queries.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Queries.cpp +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures/Wrap/FreeChemicalFeature.cpp:12: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 20%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubgraphs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Subgraphs/SubgraphUtils.cpp +[ 20%] Linking CXX shared library ../../../lib/libRDKitMolCatalog.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolCatalog.so.1 -o ../../../lib/libRDKitMolCatalog.so.1.2020.09.4 CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 21%] Linking CXX executable testConrec +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics && /usr/bin/cmake -E cmake_link_script CMakeFiles/testConrec.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testConrec.dir/testConrec.cpp.o -o testConrec ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolCatalog.so.1.2020.09.4 ../../../lib/libRDKitMolCatalog.so.1 ../../../lib/libRDKitMolCatalog.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 21%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/rdqueries.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdqueries_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdqueries.dir/rdqueries.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdqueries.cpp +[ 21%] Built target MolCatalog 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/DependInfo.cmake --color= @@ -3714,20 +3809,40 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 21%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdtrajectory_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Trajectory.cpp -[ 21%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/SmartsWrite.cpp -[ 21%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/CXSmilesOps.cpp -[ 21%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/smarts.tab.cpp -[ 21%] Linking CXX shared library ../../../lib/libRDKitMolInterchange.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolInterchange.so.1 -o ../../../lib/libRDKitMolInterchange.so.1.2020.09.4 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-DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/smiles.tab.cpp +[ 21%] Built target testConrec +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend.internal". +Scanning dependencies of target rdMolCatalog +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 21%] Building CXX object Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Optimizer.dir/LinearSearch.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer/LinearSearch.cpp +[ 21%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParseOps.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1 ../../../lib/libRDKitMolTransforms.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 21%] Built target MolTransforms +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/depend.internal". +Scanning dependencies of target rdMolTransforms +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 21%] Building CXX object Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolTransforms_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms/Wrap/rdMolTransforms.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3742,15 +3857,13 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdqueries.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/PartialCharges/Wrap/rdPartialCharges.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 22%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule1a.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3765,25 +3878,71 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Trajectory.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Queries.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 22%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule1b.cpp -[ 22%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule2.cpp -[ 22%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/Queries.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdqueries_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdqueries.dir/Queries.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Queries.cpp -[ 22%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/SLNAttribs.cpp -[ 22%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK 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/build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/lex.yysmarts.cpp +[ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Digraph.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/Node.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Node.cpp +[ 21%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/SmilesWrite.cpp +[ 21%] Linking CXX shared module ../../../rdkit/Chem/rdChemicalFeatures.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time 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CMakeFiles/SubstructMatch.dir/link.txt --verbose=1 +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubstructMatch.so.1 -o ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 21%] Built target rdChemicalFeatures +make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make 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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolInterchange.dir/Writer.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange/Writer.cpp +Scanning dependencies of target ShapeHelpers +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 21%] Building CXX object 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../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1 ../../../lib/libRDKitSubstructMatch.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 21%] Built target SubstructMatch +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign 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../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1 ../../../lib/libRDKitOptimizer.so +Scanning dependencies of target MolAlign +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 21%] Built target Optimizer +make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/depend +[ 21%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/depend.internal". +Scanning dependencies of target testOptimizer +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 22%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer/testOptimizer.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3798,33 +3957,16 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Queries.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Trajectory.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 23%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdTrajectory.cpp -[ 23%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4a.cpp -[ 23%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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/usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule4c.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4c.cpp -[ 23%] Building 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule5New.cpp -[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule6.cpp -[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/SequenceRule.cpp -[ 24%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/sln.tab.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/sln.tab.cpp +[ 22%] Linking CXX shared module ../../../../rdkit/Chem/rdPartialCharges.so +cd 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/usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3839,78 +3981,146 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdTrajectory.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.h:15, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.cpp:5: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 24%] Linking CXX shared module ../../../rdkit/Chem/rdtrajectory.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdtrajectory.so CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so -lpthread +[ 22%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/SLNAttribs.cpp make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] Built target rdtrajectory -make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend +[ 22%] Built target rdPartialCharges +make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend.internal". -Scanning dependencies of target rdChemicalFeatures +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ForceField /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/depend.internal". +Scanning dependencies of target ForceField make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build +make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK 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Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures/Wrap/FreeChemicalFeature.cpp -[ 24%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/lex.yysln.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/lex.yysln.cpp -[ 24%] Linking CXX shared library ../../../lib/libRDKitSmilesParse.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSmilesParse.so.1 -o ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 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/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.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1 ../../../lib/libRDKitSmilesParse.so +[ 22%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/ForceField.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/ForceField.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/ForceField.cpp +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms/Wrap/rdMolTransforms.cpp:12: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 22%] Linking CXX shared library ../../../lib/libRDKitSubgraphs.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubgraphs.so.1 -o ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1 ../../../lib/libRDKitSubgraphs.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] Built target SmilesParse -make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend +[ 22%] Built target Subgraphs +[ 22%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS 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Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Edge.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC 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-I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers/ShapeUtils.cpp +[ 22%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Configuration.cpp +[ 22%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp +[ 22%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/AngleBend.cpp +[ 22%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdtrajectory_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdTrajectory.cpp +[ 22%] Linking CXX shared library ../../../lib/libRDKitMolAlign.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolAlign.so.1 -o ../../../lib/libRDKitMolAlign.so.1.2020.09.4 CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 22%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/smarts.tab.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1 ../../../lib/libRDKitMolAlign.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 22%] Built target MolAlign +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend.internal". -Scanning dependencies of target MolAlign +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend.internal". +Scanning dependencies of target Depictor make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build +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-202009.4/obj-i686-linux-gnu' -[ 24%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/AlignMolecules.cpp -make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend +[ 22%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/RDDepictor.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Depictor.dir/RDDepictor.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor/RDDepictor.cpp +[ 22%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/BondStretch.cpp +[ 23%] Linking CXX shared module ../../../../rdkit/Chem/rdMolTransforms.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolTransforms.so CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 23%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 23%] Built target rdMolTransforms +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend.internal". -Scanning dependencies of target ChemTransforms +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/External/CoordGen/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/depend.internal". +Scanning dependencies of target rdCoordGen make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build +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-202009.4/obj-i686-linux-gnu' -[ 24%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms/ChemTransforms.cpp -[ 24%] Linking CXX shared library ../../../lib/libRDKitCIPLabeler.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/cmake -E cmake_link_script CMakeFiles/CIPLabeler.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitCIPLabeler.so.1 -o ../../../lib/libRDKitCIPLabeler.so.1.2020.09.4 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/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.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitCIPLabeler.so.1.2020.09.4 ../../../lib/libRDKitCIPLabeler.so.1 ../../../lib/libRDKitCIPLabeler.so +[ 23%] Building CXX object External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdCoordGen_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -c /build/reproducible-path/rdkit-202009.4/External/CoordGen/Wrap/rdCoordGen.cpp +[ 23%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/smiles.tab.cpp +[ 23%] Linking CXX shared library ../../../lib/libRDKitShapeHelpers.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitShapeHelpers.so.1 -o ../../../lib/libRDKitShapeHelpers.so.1.2020.09.4 CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitShapeHelpers.so.1.2020.09.4 ../../../lib/libRDKitShapeHelpers.so.1 ../../../lib/libRDKitShapeHelpers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] Built target CIPLabeler -make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend +[ 23%] Built target ShapeHelpers +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend.internal". -Scanning dependencies of target Optimizer +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/depend.internal". +Scanning dependencies of target rdShapeHelpers make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build +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-202009.4/obj-i686-linux-gnu' -[ 24%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer/BFGSOpt.cpp +[ 23%] Building CXX object Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT 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cmake_link_script CMakeFiles/rdMolCatalog.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolCatalog.so CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o ../../../../lib/libRDKitMolCatalog.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule1a.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 24%] Built target rdMolCatalog +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule1b.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3925,13 +4135,60 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures/Wrap/rdChemicalFeatures.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdTrajectory.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 24%] Linking CXX shared library ../../../lib/libRDKitMolInterchange.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolInterchange.so.1 -o ../../../lib/libRDKitMolInterchange.so.1.2020.09.4 CMakeFiles/MolInterchange.dir/Parser.cpp.o CMakeFiles/MolInterchange.dir/Writer.cpp.o ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 24%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/sln.tab.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/sln.tab.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolInterchange.so.1.2020.09.4 ../../../lib/libRDKitMolInterchange.so.1 ../../../lib/libRDKitMolInterchange.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 24%] Built target MolInterchange +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/depend.internal". +Scanning dependencies of target rdMolInterchange +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 24%] Building CXX object Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolInterchange_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/rapidjson -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange/Wrap/rdMolInterchange.cpp +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule2.cpp +[ 24%] Linking CXX shared module ../../../rdkit/Chem/rdtrajectory.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdtrajectory.so CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so -lpthread +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule3.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 24%] Built target rdtrajectory +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4a.cpp +[ 24%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/Nonbonded.cpp +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4b.cpp +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4c.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule4c.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4c.cpp +[ 25%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/lex.yysmarts.cpp +[ 25%] Linking CXX shared module ../../../rdkit/Chem/rdqueries.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdqueries.so CMakeFiles/rdqueries.dir/rdqueries.cpp.o CMakeFiles/rdqueries.dir/Queries.cpp.o ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 25%] Built target rdqueries +[ 26%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/Inversion.cpp +[ 26%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule5.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3946,42 +4203,233 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures/Wrap/FreeChemicalFeature.cpp:12: + from /build/reproducible-path/rdkit-202009.4/External/CoordGen/Wrap/rdCoordGen.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend +[ 27%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule5New.cpp +[ 27%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule6.cpp +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:12: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/TorsionAngle.cpp +[ 27%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/SequenceRule.cpp +[ 27%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSmilesParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/lex.yysmiles.cpp +[ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/DistanceConstraint.cpp +[ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/AngleConstraint.cpp +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange/Wrap/rdMolInterchange.cpp:10: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/TorsionConstraint.cpp +[ 27%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSLNParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SLNParse.dir/lex.yysln.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/lex.yysln.cpp +[ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/PositionConstraint.cpp +[ 27%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor/EmbeddedFrag.cpp +[ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Params.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/Params.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/Params.cpp +[ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/AngleBend.cpp +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/BondStretch.cpp +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Conformer.h:14, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ROMol.h:36, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h: In function 'boost::python::tuple RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:31: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:43: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:31: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:43: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:31: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:43: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:31: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:43: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/StretchBend.cpp +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/OopBend.cpp +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/TorsionAngle.cpp +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/Nonbonded.cpp +[ 28%] Linking CXX shared module ../../../../rdkit/Chem/rdMolInterchange.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolInterchange.dir/link.txt --verbose=1 +[ 28%] Linking CXX shared library ../../../lib/libRDKitCIPLabeler.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && 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-fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitCIPLabeler.so.1 -o ../../../lib/libRDKitCIPLabeler.so.1.2020.09.4 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/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.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 28%] Built target rdMolInterchange +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/DistanceConstraint.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT 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../../../lib/libRDKitCIPLabeler.so.1.2020.09.4 ../../../lib/libRDKitCIPLabeler.so.1 ../../../lib/libRDKitCIPLabeler.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 28%] Built target CIPLabeler +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/DependInfo.cmake --color= -Dependee 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/querytest.cpp +[ 28%] Building CXX object Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdCIPLabeler_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Wrap/rdCIPLabeler.cpp +[ 28%] Linking CXX shared module ../../../rdkit/Chem/rdCoordGen.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so -lpthread +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/AngleConstraint.cpp +[ 28%] Built target rdCoordGen +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/TorsionConstraint.cpp +[ 28%] Linking CXX shared module ../../../../rdkit/Chem/rdShapeHelpers.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdShapeHelpers.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC 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directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 28%] Built target rdShapeHelpers +[ 28%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DepictUtils.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time 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/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/PositionConstraint.cpp +[ 29%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Params.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/Params.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/Params.cpp +[ 29%] Linking CXX shared library ../../../lib/libRDKitSLNParse.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SLNParse.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSLNParse.so.1 -o ../../../lib/libRDKitSLNParse.so.1.2020.09.4 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.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 29%] Linking CXX shared library ../../../lib/libRDKitSmilesParse.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSmilesParse.so.1 -o ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 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/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.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSLNParse.so.1.2020.09.4 ../../../lib/libRDKitSLNParse.so.1 ../../../lib/libRDKitSLNParse.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 29%] Built target SLNParse +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/depend.internal". +Scanning dependencies of target rdSLNParse +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 29%] Building CXX object Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSLNParse_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/Wrap/rdSLNParse.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1 ../../../lib/libRDKitSmilesParse.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 29%] Built target SmilesParse +make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend +make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend.internal". Scanning dependencies of target graphmolcpTest +Scanning dependencies of target graphmolqueryTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build +Scanning dependencies of target ChemTransforms make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] Building CXX object Code/GraphMol/CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/cptest.cpp -[ 24%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/LinearSearch.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Optimizer.dir/LinearSearch.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer/LinearSearch.cpp -[ 24%] Linking CXX shared module ../../../rdkit/Chem/rdqueries.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdqueries.so CMakeFiles/rdqueries.dir/rdqueries.cpp.o CMakeFiles/rdqueries.dir/Queries.cpp.o ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] Built target rdqueries +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-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 29%] Building CXX object Code/GraphMol/CMakeFiles/graphmolcpTest.dir/cptest.cpp.o +[ 29%] Building CXX object Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/querytest.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/cptest.cpp +[ 29%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms/ChemTransforms.cpp +[ 29%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms/MolFragmenter.cpp make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/DependInfo.cmake --color= @@ -3991,13 +4439,8 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 24%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o +[ 29%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/memtest1.cpp -[ 24%] Linking CXX shared module ../../../rdkit/Chem/rdChemicalFeatures.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdChemicalFeatures.so CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o ../../../lib/libRDKitChemicalFeatures.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] Built target rdChemicalFeatures 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/test-valgrind.dir/DependInfo.cmake --color= @@ -4007,17 +4450,8 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 24%] Building CXX object Code/GraphMol/CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o +[ 29%] Building CXX object Code/GraphMol/CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/test-valgrind.cpp -[ 24%] Linking CXX shared library ../../../lib/libRDKitOptimizer.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitOptimizer.so.1 -o ../../../lib/libRDKitOptimizer.so.1.2020.09.4 CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o CMakeFiles/Optimizer.dir/LinearSearch.cpp.o ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -[ 24%] Linking CXX shared library ../../../lib/libRDKitSLNParse.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SLNParse.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSLNParse.so.1 -o ../../../lib/libRDKitSLNParse.so.1.2020.09.4 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.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1 ../../../lib/libRDKitOptimizer.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/DependInfo.cmake --color= @@ -4027,11 +4461,8 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 24%] Building CXX object Code/GraphMol/CMakeFiles/graphmolIterTest.dir/itertest.cpp.o +[ 29%] Building CXX object Code/GraphMol/CMakeFiles/graphmolIterTest.dir/itertest.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/itertest.cpp -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSLNParse.so.1.2020.09.4 ../../../lib/libRDKitSLNParse.so.1 ../../../lib/libRDKitSLNParse.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] Built target SLNParse 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/DependInfo.cmake --color= @@ -4041,14 +4472,8 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 24%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/smatest.cpp.o +[ 29%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/smatest.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/smaTest1.dir/smatest.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/smatest.cpp -[ 24%] Linking CXX shared library ../../../lib/libRDKitMolAlign.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolAlign.so.1 -o ../../../lib/libRDKitMolAlign.so.1.2020.09.4 CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1 ../../../lib/libRDKitMolAlign.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] Built target MolAlign 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake --color= @@ -4058,13 +4483,29 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 24%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/test2.cpp.o +[ 29%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/test2.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/smiTest2.dir/test2.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/test2.cpp -[ 24%] Linking CXX executable graphmolcpTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolcpTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -o graphmolcpTest ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] Built target graphmolcpTest +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Wrap/rdCIPLabeler.cpp:13: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/DependInfo.cmake --color= @@ -4074,13 +4515,34 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 24%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o +[ 29%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Fingerprints.cpp -[ 24%] Linking CXX executable graphmolMemTest1 -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolMemTest1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o -o graphmolMemTest1 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/Wrap/rdSLNParse.cpp:35: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 29%] Linking CXX shared module ../../../../rdkit/Chem/rdCIPLabeler.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdCIPLabeler.so CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o ../../../../lib/libRDKitCIPLabeler.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] Built target graphmolMemTest1 +[ 29%] Built target rdCIPLabeler 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/DependInfo.cmake --color= @@ -4090,13 +4552,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 25%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/Filters.cpp.o +[ 30%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/Filters.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FilterCatalog.dir/Filters.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog/Filters.cpp -[ 26%] Linking CXX executable smiTest2 -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTest2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/smiTest2.dir/test2.cpp.o -o smiTest2 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 30%] Linking CXX executable graphmolcpTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolcpTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -o graphmolcpTest ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 26%] Built target smiTest2 +[ 30%] Built target graphmolcpTest 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/DependInfo.cmake --color= @@ -4106,13 +4568,15 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 27%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/test2.cpp.o +[ 31%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/test2.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testSubgraphs2.dir/test2.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Subgraphs/test2.cpp -[ 27%] Linking CXX executable test-valgrind -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-valgrind.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o -o test-valgrind ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 31%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/depend.internal". +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 32%] Built target graphmolMemTest1 +make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/depend Scanning dependencies of target FragCatalog make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 27%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 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-I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FragCatalog.dir/FragCatalogUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/FragCatalogUtils.cpp Scanning dependencies of target testPartialCharges make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 28%] Building CXX object 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../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 28%] Built target testSubgraphs2 -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/PartialCharges/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges/Wrap 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directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 28%] Building CXX object Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolTransforms_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms/Wrap/rdMolTransforms.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/PartialCharges/Wrap/rdPartialCharges.cpp:11: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 28%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/MorganFingerprints.cpp -[ 28%] Linking CXX executable testSubgraphs1 -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubgraphs1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testSubgraphs1.dir/test1.cpp.o -o testSubgraphs1 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 33%] Linking CXX shared module ../../../../rdkit/Chem/rdSLNParse.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSLNParse.dir/link.txt --verbose=1 +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1 ../../../lib/libRDKitDepictor.so +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdSLNParse.so CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o ../../../../lib/libRDKitSLNParse.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 28%] Built target testSubgraphs1 +[ 33%] Built target Depictor 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/DependInfo.cmake --color= @@ -4231,98 +4638,11 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 28%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.cpp -[ 28%] Linking CXX shared module ../../../../rdkit/Chem/rdPartialCharges.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdPartialCharges.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdPartialCharges.so CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 28%] Built target rdPartialCharges -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend.internal". -[ 28%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/FragCatGenerator.cpp -Scanning dependencies of target ShapeHelpers -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 28%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DShapeHelpers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers/ShapeEncoder.cpp -[ 28%] Linking CXX shared library ../../../lib/libRDKitChemTransforms.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitChemTransforms.so.1 -o ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1 ../../../lib/libRDKitChemTransforms.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 28%] Built target ChemTransforms -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend.internal". -Scanning dependencies of target rdMolCatalog -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 28%] Building CXX object Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolCatalog_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms/Wrap/rdMolTransforms.cpp:12: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 28%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.h:15, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.cpp:5: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 28%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DShapeHelpers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers/ShapeUtils.cpp -[ 29%] Linking CXX shared module ../../../../rdkit/Chem/rdMolTransforms.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolTransforms.so CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 29%] Built target rdMolTransforms -[ 29%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o +[ 33%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.cpp +[ 33%] Built target rdSLNParse make -f Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/depend -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/FragCatalogEntry.cpp make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/DependInfo.cmake --color= Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/depend.internal". @@ -4331,45 +4651,14 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 29%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o +[ 33%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/catch_tests.cpp -[ 29%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog/FilterCatalogEntry.cpp -[ 29%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/AtomPairs.cpp -[ 29%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.cpp -[ 29%] Linking CXX executable smaTest1 -cd 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Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp -[ 29%] Linking CXX shared library ../../../lib/libRDKitShapeHelpers.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitShapeHelpers.so.1 -o ../../../lib/libRDKitShapeHelpers.so.1.2020.09.4 CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o 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-DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPMol.cpp -[ 29%] Linking CXX shared module ../../../../rdkit/Chem/rdMolCatalog.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap && /usr/bin/cmake 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-ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 29%] Built target rdMolCatalog -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/depend.internal". -Scanning dependencies of target rdCIPLabeler +[ 33%] Linking CXX shared library ../../lib/libRDKitForceField.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceField.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitForceField.so.1 -o ../../lib/libRDKitForceField.so.1.2020.09.4 CMakeFiles/ForceField.dir/ForceField.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/TorsionAngle.cpp.o CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/Params.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/DistanceConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/Params.cpp.o ../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitForceField.so.1.2020.09.4 ../../lib/libRDKitForceField.so.1 ../../lib/libRDKitForceField.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 29%] Building CXX object Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdCIPLabeler_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Wrap/rdCIPLabeler.cpp +[ 33%] Built target ForceField 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake --color= @@ -4379,57 +4668,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 29%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o +[ 33%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK 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Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPLabeler.cpp -[ 29%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MACCS.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/MACCS.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/MACCS.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Wrap/rdCIPLabeler.cpp:13: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 29%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/FragCatParams.cpp -[ 29%] Linking CXX shared module ../../../../rdkit/Chem/rdCIPLabeler.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdCIPLabeler.so CMakeFiles/rdCIPLabeler.dir/rdCIPLabeler.cpp.o ../../../../lib/libRDKitCIPLabeler.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 29%] 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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/depend.internal". -Scanning dependencies of target rdMolInterchange -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 29%] Building CXX object Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolInterchange_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/rapidjson -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange/Wrap/rdMolInterchange.cpp -[ 29%] Linking CXX shared library ../../../lib/libRDKitMolChemicalFeatures.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolChemicalFeatures.so.1 -o ../../../lib/libRDKitMolChemicalFeatures.so.1.2020.09.4 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.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolChemicalFeatures.so.1.2020.09.4 ../../../lib/libRDKitMolChemicalFeatures.so.1 ../../../lib/libRDKitMolChemicalFeatures.so +[ 33%] Linking CXX executable graphmolIterTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolIterTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolIterTest.dir/itertest.cpp.o -o graphmolIterTest ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 29%] Built target MolChemicalFeatures +[ 33%] Built target graphmolIterTest 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake --color= @@ -4439,73 +4684,88 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 29%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/test.cpp.o +[ 33%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/test.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testSLNParse.dir/test.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/test.cpp -[ 29%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Mancude.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange/Wrap/rdMolInterchange.cpp:10: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 29%] Linking CXX shared library ../../../lib/libRDKitReducedGraphs.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitReducedGraphs.so.1 -o ../../../lib/libRDKitReducedGraphs.so.1.2020.09.4 CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 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-I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/PatternFingerprints.cpp +[ 34%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 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'/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/depend.internal". +Scanning dependencies of target Abbreviations +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 34%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DAbbreviations_EXPORTS -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_ABBREVIATIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD 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-fPIC -std=gnu++11 -o CMakeFiles/FilterCatalog.dir/FilterCatalogRunner.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog/FilterCatalogRunner.cpp -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitReducedGraphs.so.1.2020.09.4 ../../../lib/libRDKitReducedGraphs.so.1 ../../../lib/libRDKitReducedGraphs.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 29%] Built target ReducedGraphs -[ 29%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 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-std=gnu++11 -o CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/FragFPGenerator.cpp -[ 29%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MHFP.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/MHFP.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/MHFP.cpp -[ 29%] Linking CXX shared module ../../../../rdkit/Chem/rdMolInterchange.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolInterchange.so CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o ../../../../lib/libRDKitMolInterchange.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 34%] Built target testSubgraphs2 +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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of target FileParsers make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 29%] Built target rdMolInterchange -make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/depend +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap 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-DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/Mol2FileParser.cpp +[ 34%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.cpp +[ 34%] Linking CXX shared library ../../../lib/libRDKitChemTransforms.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitChemTransforms.so.1 -o ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1 ../../../lib/libRDKitChemTransforms.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build +[ 34%] Built target ChemTransforms +make -f 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/Wrap/rdSLNParse.cpp -[ 29%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Digraph.cpp -[ 29%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.cpp +[ 34%] Linking CXX executable graphmolqueryTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolqueryTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -o graphmolqueryTest ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 34%] Built target graphmolqueryTest +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 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-I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp +[ 34%] Linking CXX executable testSubgraphs1 +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubgraphs1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/FingerprintGenerator.cpp +[ 34%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/MorganFingerprints.cpp +[ 34%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK 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../../../lib/libRDKitReducedGraphs.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitReducedGraphs.so.1 -o ../../../lib/libRDKitReducedGraphs.so.1.2020.09.4 CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitReducedGraphs.so.1.2020.09.4 ../../../lib/libRDKitReducedGraphs.so.1 ../../../lib/libRDKitReducedGraphs.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 34%] Built target ReducedGraphs +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend.internal". +Scanning dependencies of target testReducedGraphs +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make 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-Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testReducedGraphs.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs/test1.cpp +[ 34%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF/Builder.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4533,37 +4814,17 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/Wrap/rdSLNParse.cpp:35: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 31%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Edge.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated 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/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Configuration.cpp -[ 31%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend.internal". -[ 32%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend.internal". +Scanning dependencies of target rdReducedGraphs make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build +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-202009.4/obj-i686-linux-gnu' -[ 32%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/RDDepictor.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC 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-I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs/Wrap/rdReducedGraphs.cpp +[ 35%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.cpp +[ 35%] Building CXX object 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-I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupParsing.cpp +[ 36%] Linking CXX shared module ../../../../rdkit/Chem/rdDepictor.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDepictor.so CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 36%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 36%] Built target rdDepictor +[ 36%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/FragCatParams.cpp +[ 36%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/AtomPairs.cpp +[ 36%] Linking CXX shared library ../../../lib/libRDKitAbbreviations.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitAbbreviations.so.1 -o ../../../lib/libRDKitAbbreviations.so.1.2020.09.4 CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitAbbreviations.so.1.2020.09.4 ../../../lib/libRDKitAbbreviations.so.1 ../../../lib/libRDKitAbbreviations.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 32%] Built target Abbreviations -make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/depend -[ 33%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o +[ 36%] Built target Abbreviations +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/External/CoordGen/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake --color= -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule3.cpp -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/depend.internal". -Scanning dependencies of target rdCoordGen +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend.internal". +Scanning dependencies of target rdAbbreviations make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build +make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -c /build/reproducible-path/rdkit-202009.4/External/CoordGen/Wrap/rdCoordGen.cpp -[ 33%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4a.cpp -[ 33%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/MorganGenerator.cpp -[ 33%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4b.cpp.o -cd 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/build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4b.cpp -[ 33%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4c.cpp -[ 33%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule5.cpp -[ 33%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule5New.cpp -[ 33%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule6.cpp -[ 33%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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/build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations/Wrap/rdAbbreviations.cpp +[ 36%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MACCS.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/MACCS.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/MACCS.cpp +[ 36%] Linking CXX executable smaTest1 +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smaTest1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/smaTest1.dir/smatest.cpp.o -o smaTest1 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4670,113 +4919,29 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/External/CoordGen/Wrap/rdCoordGen.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs/Wrap/rdReducedGraphs.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 33%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DepictUtils.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Depictor.dir/DepictUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor/DepictUtils.cpp -[ 34%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp -[ 34%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/FingerprintUtil.cpp -[ 35%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Table.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Table.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Table.cpp -[ 35%] Building CXX object 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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Bond.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Bond.cpp -[ 35%] Linking CXX shared module ../../../rdkit/Chem/rdCoordGen.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated 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../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so -lpthread -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 35%] Built target rdCoordGen -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer 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testOptimizer -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDepictor.so.1 -o ../../../lib/libRDKitDepictor.so.1.2020.09.4 CMakeFiles/Depictor.dir/RDDepictor.cpp.o CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o CMakeFiles/Depictor.dir/DepictUtils.cpp.o ../../../lib/libRDKitMolAlign.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 36%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer/testOptimizer.cpp -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1 ../../../lib/libRDKitDepictor.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 36%] Built target Depictor -make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ForceField /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/depend.internal". -Scanning dependencies of target ForceField -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 36%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/ForceField.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/ForceField.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/ForceField.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Table.cpp:13: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Atom.cpp:12: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend.internal". -Scanning dependencies of target rdDepictor +[ 36%] Built target smaTest1 +[ 36%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.cpp +[ 36%] Linking CXX executable testSLNParse +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSLNParse.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testSLNParse.dir/test.cpp.o -o testSLNParse ../../../lib/libRDKitSLNParse.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 36%] Building CXX object Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdDepictor_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp +[ 36%] Built target testSLNParse +[ 36%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MHFP.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/MHFP.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/MHFP.cpp +[ 36%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/FragFPGenerator.cpp +[ 36%] Linking CXX shared library ../../../lib/libRDKitFilterCatalog.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FilterCatalog.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 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../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4791,21 +4956,16 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Bond.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations/Wrap/rdAbbreviations.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 37%] Linking CXX executable testCIPLabeler -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCIPLabeler.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now 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/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 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1 ../../../lib/libRDKitFilterCatalog.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 37%] Linking CXX executable testOptimizer -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/testOptimizer.dir/link.txt --verbose=1 -[ 37%] Built target testCIPLabeler -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testOptimizer.dir/testOptimizer.cpp.o -o testOptimizer ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 36%] Built target FilterCatalog 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/DependInfo.cmake --color= @@ -4815,20 +4975,23 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 37%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o +[ 36%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT 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target testOptimizer -[ 37%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o +[ 36%] Linking CXX shared module ../../../../rdkit/Chem/rdReducedGraphs.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdReducedGraphs.so CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o ../../../../lib/libRDKitReducedGraphs.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 36%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfiltercatalog_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp -[ 37%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/AngleBend.cpp -[ 37%] Linking CXX shared library ../../../lib/libRDKitFingerprints.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFingerprints.so.1 -o ../../../lib/libRDKitFingerprints.so.1.2020.09.4 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/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1 ../../../lib/libRDKitFingerprints.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 37%] Built target Fingerprints +[ 36%] Built target rdReducedGraphs +[ 36%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/FingerprintGenerator.cpp +[ 36%] Linking CXX shared library ../../../lib/libRDKitMolChemicalFeatures.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolChemicalFeatures.so.1 -o ../../../lib/libRDKitMolChemicalFeatures.so.1.2020.09.4 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.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolChemicalFeatures.so.1.2020.09.4 ../../../lib/libRDKitMolChemicalFeatures.so.1 ../../../lib/libRDKitMolChemicalFeatures.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 36%] Built target MolChemicalFeatures 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake --color= @@ -4838,8 +5001,10 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 38%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o +[ 37%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/rdMolChemicalFeatures.cpp +[ 37%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4854,15 +5019,17 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp:31: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 38%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Mol.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Mol.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Mol.cpp +[ 37%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/MorganGenerator.cpp +[ 37%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4885,31 +5052,15 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 38%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/BondStretch.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp:31: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 38%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Conformer.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Conformer.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Conformer.cpp +[ 38%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp +[ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp +[ 38%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolFileStereochem.cpp +[ 39%] Linking CXX shared library ../../../lib/libRDKitFragCatalog.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFragCatalog.so.1 -o ../../../lib/libRDKitFragCatalog.so.1.2020.09.4 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.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4931,45 +5082,213 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 39%] Linking CXX shared module ../../../../rdkit/Chem/rdDepictor.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDepictor.so CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 40%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFragCatalog.so.1.2020.09.4 ../../../lib/libRDKitFragCatalog.so.1 ../../../lib/libRDKitFragCatalog.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 39%] Built target rdDepictor -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/depend.internal". -Scanning dependencies of target rdShapeHelpers +[ 40%] Built target FragCatalog +[ 41%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolFileWriter.cpp +[ 41%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp +[ 41%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/FingerprintUtil.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/FingerprintUtil.cpp +[ 41%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp +[ 42%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Table.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Table.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Table.cpp +[ 42%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.cpp +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SAPLines(int, const RDKit::SubstanceGroup&)': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 11 bytes into a region of size 4 [-Wformat-truncation=] + 24 | snprintf(output, 5, " %3d", value); + | ^~~ +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-2147483647, 2147483647] + 24 | snprintf(output, 5, " %3d", value); + | ^~~~~~ +In file included from /usr/include/stdio.h:867, + from /usr/include/c++/10/cstdio:42, + from /usr/include/c++/10/ext/string_conversions.h:43, + from /usr/include/c++/10/bits/basic_string.h:6545, + from /usr/include/c++/10/string:55, + from /usr/include/c++/10/bits/locale_classes.h:40, + from /usr/include/c++/10/bits/ios_base.h:41, + from /usr/include/c++/10/streambuf:41, + from /usr/include/c++/10/bits/streambuf_iterator.h:35, + from /usr/include/c++/10/iterator:66, + from /usr/include/boost/iterator/iterator_traits.hpp:10, + from /usr/include/boost/range/mutable_iterator.hpp:23, + from /usr/include/boost/range/iterator.hpp:20, + from /usr/include/boost/range/begin.hpp:20, + from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, + from /usr/include/boost/algorithm/string/join.hpp:15, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: +/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 13 bytes into a destination of size 5 + 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 68 | __bos (__s), __fmt, __va_arg_pack ()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 43%] Linking CXX shared module ../../../../rdkit/Chem/rdAbbreviations.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdAbbreviations.so CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o ../../../../lib/libRDKitAbbreviations.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 39%] Building CXX object Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdShapeHelpers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp -[ 39%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/Nonbonded.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Mol.cpp:11: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 43%] Built target rdAbbreviations +[ 43%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Atom.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Atom.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Atom.cpp +[ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/SDMolSupplier.cpp +[ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDWriter.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SDWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/SDWriter.cpp +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000STYLines(const RDKit::ROMol&)': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] + 24 | snprintf(output, 5, " %3d", value); + | ^~~ +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] + 24 | snprintf(output, 5, " %3d", value); + | ^~~~~~ +In file included from /usr/include/stdio.h:867, + from /usr/include/c++/10/cstdio:42, + from /usr/include/c++/10/ext/string_conversions.h:43, + from /usr/include/c++/10/bits/basic_string.h:6545, + from /usr/include/c++/10/string:55, + from /usr/include/c++/10/bits/locale_classes.h:40, + from /usr/include/c++/10/bits/ios_base.h:41, + from /usr/include/c++/10/streambuf:41, + from /usr/include/c++/10/bits/streambuf_iterator.h:35, + from /usr/include/c++/10/iterator:66, + from /usr/include/boost/iterator/iterator_traits.hpp:10, + from /usr/include/boost/range/mutable_iterator.hpp:23, + from /usr/include/boost/range/iterator.hpp:20, + from /usr/include/boost/range/begin.hpp:20, + from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, + from /usr/include/boost/algorithm/string/join.hpp:15, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: +/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 + 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 68 | __bos (__s), __fmt, __va_arg_pack ()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SBTLines(const RDKit::ROMol&)': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] + 24 | snprintf(output, 5, " %3d", value); + | ^~~ +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] + 24 | snprintf(output, 5, " %3d", value); + | ^~~~~~ +In file included from /usr/include/stdio.h:867, + from /usr/include/c++/10/cstdio:42, + from /usr/include/c++/10/ext/string_conversions.h:43, + from /usr/include/c++/10/bits/basic_string.h:6545, + from /usr/include/c++/10/string:55, + from /usr/include/c++/10/bits/locale_classes.h:40, + from /usr/include/c++/10/bits/ios_base.h:41, + from /usr/include/c++/10/streambuf:41, + from /usr/include/c++/10/bits/streambuf_iterator.h:35, + from /usr/include/c++/10/iterator:66, + from /usr/include/boost/iterator/iterator_traits.hpp:10, + from /usr/include/boost/range/mutable_iterator.hpp:23, + from /usr/include/boost/range/iterator.hpp:20, + from /usr/include/boost/range/begin.hpp:20, + from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, + from /usr/include/boost/algorithm/string/join.hpp:15, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: +/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 + 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 68 | __bos (__s), __fmt, __va_arg_pack ()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] + 24 | snprintf(output, 5, " %3d", value); + | ^~~ +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] + 24 | snprintf(output, 5, " %3d", value); + | ^~~~~~ +In file included from /usr/include/stdio.h:867, + from /usr/include/c++/10/cstdio:42, + from /usr/include/c++/10/ext/string_conversions.h:43, + from /usr/include/c++/10/bits/basic_string.h:6545, + from /usr/include/c++/10/string:55, + from /usr/include/c++/10/bits/locale_classes.h:40, + from /usr/include/c++/10/bits/ios_base.h:41, + from /usr/include/c++/10/streambuf:41, + from /usr/include/c++/10/bits/streambuf_iterator.h:35, + from /usr/include/c++/10/iterator:66, + from /usr/include/boost/iterator/iterator_traits.hpp:10, + from /usr/include/boost/range/mutable_iterator.hpp:23, + from /usr/include/boost/range/iterator.hpp:20, + from /usr/include/boost/range/begin.hpp:20, + from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, + from /usr/include/boost/algorithm/string/join.hpp:15, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: +/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 + 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 68 | __bos (__s), __fmt, __va_arg_pack ()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SDSLines(const RDKit::ROMol&)': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] + 24 | snprintf(output, 5, " %3d", value); + | ^~~ +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] + 24 | snprintf(output, 5, " %3d", value); + | ^~~~~~ +In file included from /usr/include/stdio.h:867, + from /usr/include/c++/10/cstdio:42, + from /usr/include/c++/10/ext/string_conversions.h:43, + from /usr/include/c++/10/bits/basic_string.h:6545, + from /usr/include/c++/10/string:55, + from /usr/include/c++/10/bits/locale_classes.h:40, + from /usr/include/c++/10/bits/ios_base.h:41, + from /usr/include/c++/10/streambuf:41, + from /usr/include/c++/10/bits/streambuf_iterator.h:35, + from /usr/include/c++/10/iterator:66, + from /usr/include/boost/iterator/iterator_traits.hpp:10, + from /usr/include/boost/range/mutable_iterator.hpp:23, + from /usr/include/boost/range/iterator.hpp:20, + from /usr/include/boost/range/begin.hpp:20, + from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, + from /usr/include/boost/algorithm/string/join.hpp:15, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: +/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 + 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 68 | __bos (__s), __fmt, __va_arg_pack ()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000StringPropLines(unsigned int, const RDKit::ROMol&, const string&, const string&, unsigned int)': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] + 24 | snprintf(output, 5, " %3d", value); + | ^~~ +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] + 24 | snprintf(output, 5, " %3d", value); + | ^~~~~~ +In file included from /usr/include/stdio.h:867, + from /usr/include/c++/10/cstdio:42, + from /usr/include/c++/10/ext/string_conversions.h:43, + from /usr/include/c++/10/bits/basic_string.h:6545, + from /usr/include/c++/10/string:55, + from /usr/include/c++/10/bits/locale_classes.h:40, + from /usr/include/c++/10/bits/ios_base.h:41, + from /usr/include/c++/10/streambuf:41, + from /usr/include/c++/10/bits/streambuf_iterator.h:35, + from /usr/include/c++/10/iterator:66, + from /usr/include/boost/iterator/iterator_traits.hpp:10, + from /usr/include/boost/range/mutable_iterator.hpp:23, + from /usr/include/boost/range/iterator.hpp:20, + from /usr/include/boost/range/begin.hpp:20, + from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, + from /usr/include/boost/algorithm/string/join.hpp:15, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: +/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 + 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 68 | __bos (__s), __fmt, __va_arg_pack ()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -4984,17 +5303,15 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Conformer.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Table.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 39%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp -[ 40%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/Inversion.cpp +[ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5009,19 +5326,124 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 40%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/RingInfo.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/RingInfo.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/RingInfo.cpp -[ 40%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/EditableMol.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/EditableMol.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/EditableMol.cpp -[ 40%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/TorsionAngle.cpp +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SNCLines(const RDKit::ROMol&)': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] + 24 | snprintf(output, 5, " %3d", value); + | ^~~ +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] + 24 | snprintf(output, 5, " %3d", value); + | ^~~~~~ +In file included from /usr/include/stdio.h:867, + from /usr/include/c++/10/cstdio:42, + from /usr/include/c++/10/ext/string_conversions.h:43, + from /usr/include/c++/10/bits/basic_string.h:6545, + from /usr/include/c++/10/string:55, + from /usr/include/c++/10/bits/locale_classes.h:40, + from /usr/include/c++/10/bits/ios_base.h:41, + from /usr/include/c++/10/streambuf:41, + from /usr/include/c++/10/bits/streambuf_iterator.h:35, + from /usr/include/c++/10/iterator:66, + from /usr/include/boost/iterator/iterator_traits.hpp:10, + from /usr/include/boost/range/mutable_iterator.hpp:23, + from /usr/include/boost/range/iterator.hpp:20, + from /usr/include/boost/range/begin.hpp:20, + from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, + from /usr/include/boost/algorithm/string/join.hpp:15, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: +/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 + 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 68 | __bos (__s), __fmt, __va_arg_pack ()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SLBLines(const RDKit::ROMol&)': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] + 24 | snprintf(output, 5, " %3d", value); + | ^~~ +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] + 24 | snprintf(output, 5, " %3d", value); + | ^~~~~~ +In file included from /usr/include/stdio.h:867, + from /usr/include/c++/10/cstdio:42, + from /usr/include/c++/10/ext/string_conversions.h:43, + from /usr/include/c++/10/bits/basic_string.h:6545, + from /usr/include/c++/10/string:55, + from /usr/include/c++/10/bits/locale_classes.h:40, + from /usr/include/c++/10/bits/ios_base.h:41, + from /usr/include/c++/10/streambuf:41, + from /usr/include/c++/10/bits/streambuf_iterator.h:35, + from /usr/include/c++/10/iterator:66, + from /usr/include/boost/iterator/iterator_traits.hpp:10, + from /usr/include/boost/range/mutable_iterator.hpp:23, + from /usr/include/boost/range/iterator.hpp:20, + from /usr/include/boost/range/begin.hpp:20, + from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, + from /usr/include/boost/algorithm/string/join.hpp:15, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: +/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 + 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 68 | __bos (__s), __fmt, __va_arg_pack ()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SPLLines(const RDKit::ROMol&)': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] + 24 | snprintf(output, 5, " %3d", value); + | ^~~ +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] + 24 | snprintf(output, 5, " %3d", value); + | ^~~~~~ +In file included from /usr/include/stdio.h:867, + from /usr/include/c++/10/cstdio:42, + from /usr/include/c++/10/ext/string_conversions.h:43, + from /usr/include/c++/10/bits/basic_string.h:6545, + from /usr/include/c++/10/string:55, + from /usr/include/c++/10/bits/locale_classes.h:40, + from /usr/include/c++/10/bits/ios_base.h:41, + from /usr/include/c++/10/streambuf:41, + from /usr/include/c++/10/bits/streambuf_iterator.h:35, + from /usr/include/c++/10/iterator:66, + from /usr/include/boost/iterator/iterator_traits.hpp:10, + from /usr/include/boost/range/mutable_iterator.hpp:23, + from /usr/include/boost/range/iterator.hpp:20, + from /usr/include/boost/range/begin.hpp:20, + from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, + from /usr/include/boost/algorithm/string/join.hpp:15, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: +/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 + 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 68 | __bos (__s), __fmt, __va_arg_pack ()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 43%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeatureFactory.cpp +[ 43%] Linking CXX shared library ../../../lib/libRDKitForceFieldHelpers.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitForceFieldHelpers.so.1 -o ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 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 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1 ../../../lib/libRDKitForceFieldHelpers.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 43%] Built target ForceFieldHelpers +make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/depend +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DistGeom /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake --color= +[ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry.dir/depend.internal". +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/SmilesWriter.cpp +Scanning dependencies of target DistGeometry +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 43%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DistGeom/DistGeomUtils.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5036,53 +5458,40 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Atom.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Conformer.h:14, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ROMol.h:36, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h: In function 'boost::python::tuple RDKit::getUnionOfTwoBox(boost::python::tuple, boost::python::tuple)': -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:31: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:43: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:31: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:43: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:31: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:43: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:31: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:43: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ +[ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/TDTMolSupplier.cpp +[ 43%] Linking CXX shared library ../../../lib/libRDKitFingerprints.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFingerprints.so.1 -o ../../../lib/libRDKitFingerprints.so.1.2020.09.4 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/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 43%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Bond.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Bond.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Bond.cpp +[ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTWriter.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD 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Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp +[ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileParser.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/TplFileParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/TplFileParser.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1 ../../../lib/libRDKitFingerprints.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 44%] Built target Fingerprints +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend.internal". +Scanning dependencies of target rdForceField +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 44%] Building CXX object Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/ForceField.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdForceField_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdForceField.dir/ForceField.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5097,36 +5506,37 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/RingInfo.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeatureFactory.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 40%] Linking CXX shared module ../../../../rdkit/Chem/rdShapeHelpers.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdShapeHelpers.so CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o ../../../../lib/libRDKitShapeHelpers.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/TplFileWriter.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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/depend.internal". +Scanning dependencies of target rdMHFPFingerprint make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 40%] Built target rdShapeHelpers -make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend.internal". -Scanning dependencies of target testReducedGraphs +[ 44%] Building CXX object Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMHFPFingerprint_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend.internal". +Scanning dependencies of target rdFingerprintGenerator make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build +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-202009.4/obj-i686-linux-gnu' -[ 40%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/test1.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testReducedGraphs.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs/test1.cpp -[ 40%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/DistanceConstraint.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Conformer.cpp:21: -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h: In member function 'T PySequenceHolder::operator[](unsigned int) const [with T = double]': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h:68:9: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 68 | T res = python::extract(d_seq[which]); - | ^~~ +[ 45%] Building CXX object Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdFingerprintGenerator_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5141,37 +5551,13 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/EditableMol.cpp:17: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Bond.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 40%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeatureFactory.cpp -[ 40%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/AngleConstraint.cpp -[ 40%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MonomerInfo.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/MonomerInfo.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MonomerInfo.cpp -[ 41%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/ResonanceMolSupplier.cpp -[ 42%] Linking CXX executable testReducedGraphs -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReducedGraphs.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testReducedGraphs.dir/test1.cpp.o -o testReducedGraphs ../../../lib/libRDKitReducedGraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 42%] Built target testReducedGraphs -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend.internal". -Scanning dependencies of target rdReducedGraphs -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 42%] Building CXX object Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdReducedGraphs_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs/Wrap/rdReducedGraphs.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5186,26 +5572,15 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeatureFactory.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake --color= /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend.internal". -Scanning dependencies of target SubstructLibrary -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 42%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructLibrary_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/SubstructLibrary.cpp -[ 42%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/TorsionConstraint.cpp +[ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBParser.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/PDBParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/PDBParser.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5220,13 +5595,28 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MonomerInfo.cpp:13: + from /build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 45%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o -c /build/reproducible-path/rdkit-202009.4/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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend.internal". +Scanning dependencies of target rdForceFieldHelpers +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 45%] Building CXX object Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdForceFieldHelpers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp +[ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBWriter.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/PDBWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/PDBWriter.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5240,13 +5630,20 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/ResonanceMolSupplier.cpp:15: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/PDBSupplier.cpp +[ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/XYZFileWriter.cpp +[ 45%] Linking CXX shared module ../../../../rdkit/Chem/rdMolChemicalFeatures.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolChemicalFeatures.so CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o ../../../../lib/libRDKitMolChemicalFeatures.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5260,38 +5657,28 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs/Wrap/rdReducedGraphs.cpp:13: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 42%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolChemicalFeatures_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time 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-I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/PositionConstraint.cpp -[ 42%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Params.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/UFF/Params.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/Params.cpp -[ 42%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleBend.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT 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/usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 42%] Built target rdReducedGraphs -make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend +[ 45%] Built target rdMolChemicalFeatures +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend.internal". -Scanning dependencies of target rdAbbreviations +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake 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of target O3AAlign make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build +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-202009.4/obj-i686-linux-gnu' -[ 42%] Building CXX object Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdAbbreviations_EXPORTS 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/build/reproducible-path/rdkit-202009.4/Code/DistGeom/DistViolationContrib.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5306,35 +5693,56 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 43%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/BondStretch.cpp -[ 43%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/StretchBend.cpp -[ 43%] Linking CXX shared module ../../../../rdkit/Chem/rdMolChemicalFeatures.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolChemicalFeatures.so CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o ../../../../lib/libRDKitMolChemicalFeatures.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -[ 43%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MolBundle.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/MolBundle.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MolBundle.cpp +[ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MaeMolSupplier.cpp +[ 45%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPMol.cpp +/build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp: In member function 'double ForceFields::PyForceField::calcEnergyWithPos(const boost::python::api::object&)': +/build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp:136:12: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 136 | c[i] = python::extract(pos[i]); +/build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp: In member function 'PyObject* ForceFields::PyForceField::calcGradWithPos(const boost::python::api::object&)': +/build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp:172:12: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 172 | c[i] = python::extract(pos[i]); +[ 45%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/ProximityBonds.cpp +[ 46%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DistGeom/ChiralViolationContrib.cpp +[ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/SequenceParsers.cpp +[ 47%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Mol.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Mol.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Mol.cpp +[ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/SequenceWriters.cpp +[ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SVGParser.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SVGParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/SVGParser.cpp +[ 47%] Linking CXX shared library ../../lib/libRDKitDistGeometry.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeometry.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDistGeometry.so.1 -o ../../lib/libRDKitDistGeometry.so.1.2020.09.4 CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../lib/libRDKitForceField.so.1.2020.09.4 ../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../lib/libRDKitDistGeometry.so.1 ../../lib/libRDKitDistGeometry.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 43%] Built target rdMolChemicalFeatures -make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend +[ 47%] Built target DistGeometry +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend.internal". -Scanning dependencies of target FileParsers +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend.internal". +Scanning dependencies of target SubstructLibrary make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build +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-202009.4/obj-i686-linux-gnu' -[ 43%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/Mol2FileParser.cpp +[ 47%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructLibrary_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/SubstructLibrary.cpp +[ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PNGParser.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/PNGParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/PNGParser.cpp +[ 47%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPLabeler.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5349,64 +5757,77 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations/Wrap/rdAbbreviations.cpp:11: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 43%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructLibrary_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/PatternFactory.cpp -[ 43%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/OopBend.cpp -[ 43%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/TorsionAngle.cpp -[ 43%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/StereoGroup.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/StereoGroup.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/StereoGroup.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MolBundle.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Mol.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 44%] Linking CXX shared module ../../../../rdkit/Chem/rdfiltercatalog.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdfiltercatalog.so CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o ../../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 47%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Conformer.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Conformer.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Conformer.cpp +[ 47%] Linking CXX shared module ../../../../rdkit/Chem/rdForceFieldHelpers.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdForceFieldHelpers.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdForceFieldHelpers.so CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o ../../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 44%] Built target rdfiltercatalog -make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/depend +[ 47%] Built target rdForceFieldHelpers +[ 47%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/RingInfo.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/RingInfo.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/RingInfo.cpp +[ 47%] Linking CXX shared module ../../../rdkit/ForceField/rdForceField.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/ForceField/rdForceField.so CMakeFiles/rdForceField.dir/ForceField.cpp.o ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 47%] Built target rdForceField +make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/depend.internal". -Scanning dependencies of target rdMHFPFingerprint +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend.internal". +Scanning dependencies of target DistGeomHelpers make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build +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-202009.4/obj-i686-linux-gnu' -[ 44%] Building CXX object Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMHFPFingerprint_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp -[ 44%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Nonbonded.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/DistanceConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/DistanceConstraint.cpp -[ 45%] Linking CXX shared library ../../../lib/libRDKitSubstructLibrary.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubstructLibrary.so.1 -o ../../../lib/libRDKitSubstructLibrary.so.1.2020.09.4 CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 47%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.cpp +[ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD 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../../../../rdkit/Chem/rdFingerprintGenerator.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFingerprintGenerator.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdFingerprintGenerator.so CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 47%] Built target rdFingerprintGenerator +make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/depend +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DistGeom /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/depend.internal". +Scanning dependencies of target testDistGeom +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 47%] Building CXX object Code/DistGeom/CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DistGeom/testDistGeom.cpp +[ 47%] Linking CXX shared library ../../../lib/libRDKitO3AAlign.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitO3AAlign.so.1 -o ../../../lib/libRDKitO3AAlign.so.1.2020.09.4 CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DistGeom/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend.internal". +Scanning dependencies of target DistGeom +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 48%] Building CXX object Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DistGeom.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeom_EXPORTS -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DistGeom.dir/DistGeom.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DistGeom/Wrap/DistGeom.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitO3AAlign.so.1.2020.09.4 ../../../lib/libRDKitO3AAlign.so.1 ../../../lib/libRDKitO3AAlign.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 48%] Built target O3AAlign +[ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.cpp +[ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5420,21 +5841,14 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/StereoGroup.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Conformer.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructLibrary.so.1.2020.09.4 ../../../lib/libRDKitSubstructLibrary.so.1 ../../../lib/libRDKitSubstructLibrary.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 45%] Built target SubstructLibrary -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend.internal". In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5448,47 +5862,41 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/RingInfo.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -Scanning dependencies of target rdFingerprintGenerator /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 48%] Linking CXX shared module ../../../../rdkit/Chem/rdMHFPFingerprint.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMHFPFingerprint.so CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 48%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Mancude.cpp make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 46%] Building CXX object Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdFingerprintGenerator_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp -[ 46%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/AngleConstraint.cpp -[ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileParser.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolFileParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolFileParser.cpp -[ 46%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/TorsionConstraint.cpp -[ 47%] Linking CXX shared module ../../../../rdkit/Chem/rdAbbreviations.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdAbbreviations.so CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o ../../../../lib/libRDKitAbbreviations.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 48%] Built target rdMHFPFingerprint +[ 48%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Digraph.cpp +[ 49%] Linking CXX shared module ../../../../rdkit/Chem/rdfiltercatalog.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdfiltercatalog.so CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o ../../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 49%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Node.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/Node.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Node.cpp make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 47%] Built target rdAbbreviations -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend.internal". -Scanning dependencies of target rdSubstructLibrary +[ 49%] Built target rdfiltercatalog +[ 50%] Linking CXX executable testDistGeom +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeom.dir/link.txt --verbose=1 +[ 51%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Edge.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/Edge.cpp.o 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-ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 47%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSubstructLibrary_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp -[ 47%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT 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CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Chirality.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Chirality.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Chirality.cpp +[ 51%] Built target testDistGeom +[ 51%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Sort.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/Sort.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Sort.cpp +[ 51%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Configuration.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5502,17 +5910,55 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp:13: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/DistGeom/Wrap/DistGeom.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 48%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Params.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceField.dir/MMFF/Params.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/Params.cpp -[ 48%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSubstructLibrary_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp +[ 51%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp +[ 51%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp +[ 51%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/EditableMol.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/EditableMol.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/EditableMol.cpp +[ 51%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MonomerInfo.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated 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../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 52%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong 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-I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule2.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 52%] Built target DistGeom +[ 52%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MolBundle.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4c.cpp +[ 53%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DSubstructLibrary_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/PatternFactory.cpp +[ 53%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule5.cpp +[ 53%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule5New.cpp +[ 53%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule6.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5526,7 +5972,8 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SubstanceGroup.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/EditableMol.cpp:17: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -5546,17 +5993,30 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.h:36, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp:32: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MonomerInfo.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupParsing.cpp +[ 53%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/SequenceRule.cpp +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Conformer.cpp:21: +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h: In member function 'T PySequenceHolder::operator[](unsigned int) const [with T = double]': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h:68:9: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 68 | T res = python::extract(d_seq[which]); + | ^~~ +[ 53%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/StereoGroup.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/StereoGroup.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/StereoGroup.cpp +[ 53%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SubstanceGroup.cpp +[ 53%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Chirality.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdchem_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdchem.dir/Chirality.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Chirality.cpp +[ 53%] Linking CXX shared library ../../../lib/libRDKitFileParsers.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFileParsers.so.1 -o ../../../lib/libRDKitFileParsers.so.1.2020.09.4 CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o CMakeFiles/FileParsers.dir/MolFileParser.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/PDBSupplier.cpp.o CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o CMakeFiles/FileParsers.dir/MaeMolSupplier.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/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -5570,8 +6030,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Chirality.cpp:10: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MolBundle.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -5591,510 +6050,56 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp:31: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/ResonanceMolSupplier.cpp:15: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolSGroupWriting.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp -[ 48%] Linking CXX shared library ../../lib/libRDKitForceField.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceField.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitForceField.so.1 -o ../../lib/libRDKitForceField.so.1.2020.09.4 CMakeFiles/ForceField.dir/ForceField.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/TorsionAngle.cpp.o CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/PositionConstraint.cpp.o CMakeFiles/ForceField.dir/UFF/Params.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/DistanceConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o CMakeFiles/ForceField.dir/MMFF/Params.cpp.o ../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitForceField.so.1.2020.09.4 ../../lib/libRDKitForceField.so.1 ../../lib/libRDKitForceField.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 48%] Built target ForceField -[ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolFileStereochem.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp:34: -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 285 | if (df_isTextMode && c > STD_ASCII) { - | ~~^~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 297 | if ((!df_isTextMode || c <= STD_ASCII) && - | ~~^~~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 308 | if (df_isTextMode && c > STD_ASCII && - | ~~^~~~~~~~~~~ -[ 48%] Linking CXX shared module ../../../../rdkit/Chem/rdMHFPFingerprint.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMHFPFingerprint.so CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 48%] Built target rdMHFPFingerprint -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/depend.internal". -Scanning dependencies of target ForceFieldHelpers -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 48%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/UFF/AtomTyper.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Conformer.h:14, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RDKitBase.h:25, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SubstanceGroup.cpp:17: -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h: In function 'void RDKit::{anonymous}::addBracketHelper(RDKit::SubstanceGroup&, boost::python::api::object)': -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:31: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:43: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -[ 48%] Linking CXX shared module ../../../../rdkit/Chem/rdFingerprintGenerator.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFingerprintGenerator.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdFingerprintGenerator.so CMakeFiles/rdFingerprintGenerator.dir/FingerprintGeneratorWrapper.cpp.o ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SAPLines(int, const RDKit::SubstanceGroup&)': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 11 bytes into a region of size 4 [-Wformat-truncation=] - 24 | snprintf(output, 5, " %3d", value); - | ^~~ -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-2147483647, 2147483647] - 24 | snprintf(output, 5, " %3d", value); - | ^~~~~~ -In file included from /usr/include/stdio.h:867, - from /usr/include/c++/10/cstdio:42, - from /usr/include/c++/10/ext/string_conversions.h:43, - from /usr/include/c++/10/bits/basic_string.h:6545, - from /usr/include/c++/10/string:55, - from /usr/include/c++/10/bits/locale_classes.h:40, - from /usr/include/c++/10/bits/ios_base.h:41, - from /usr/include/c++/10/streambuf:41, - from /usr/include/c++/10/bits/streambuf_iterator.h:35, - from /usr/include/c++/10/iterator:66, - from /usr/include/boost/iterator/iterator_traits.hpp:10, - from /usr/include/boost/range/mutable_iterator.hpp:23, - from /usr/include/boost/range/iterator.hpp:20, - from /usr/include/boost/range/begin.hpp:20, - from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, - from /usr/include/boost/algorithm/string/join.hpp:15, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: -/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 13 bytes into a destination of size 5 - 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 68 | __bos (__s), __fmt, __va_arg_pack ()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 48%] Built target rdFingerprintGenerator -[ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolFileWriter.cpp -[ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp -[ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/SDMolSupplier.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000STYLines(const RDKit::ROMol&)': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] - 24 | snprintf(output, 5, " %3d", value); - | ^~~ -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] - 24 | snprintf(output, 5, " %3d", value); - | ^~~~~~ -In file included from /usr/include/stdio.h:867, - from /usr/include/c++/10/cstdio:42, - from /usr/include/c++/10/ext/string_conversions.h:43, - from /usr/include/c++/10/bits/basic_string.h:6545, - from /usr/include/c++/10/string:55, - from /usr/include/c++/10/bits/locale_classes.h:40, - from /usr/include/c++/10/bits/ios_base.h:41, - from /usr/include/c++/10/streambuf:41, - from /usr/include/c++/10/bits/streambuf_iterator.h:35, - from /usr/include/c++/10/iterator:66, - from /usr/include/boost/iterator/iterator_traits.hpp:10, - from /usr/include/boost/range/mutable_iterator.hpp:23, - from /usr/include/boost/range/iterator.hpp:20, - from /usr/include/boost/range/begin.hpp:20, - from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, - from /usr/include/boost/algorithm/string/join.hpp:15, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: -/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 - 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 68 | __bos (__s), __fmt, __va_arg_pack ()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 49%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF/Builder.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SBTLines(const RDKit::ROMol&)': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] - 24 | snprintf(output, 5, " %3d", value); - | ^~~ -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] - 24 | snprintf(output, 5, " %3d", value); - | ^~~~~~ -In file included from /usr/include/stdio.h:867, - from /usr/include/c++/10/cstdio:42, - from /usr/include/c++/10/ext/string_conversions.h:43, - from /usr/include/c++/10/bits/basic_string.h:6545, - from /usr/include/c++/10/string:55, - from /usr/include/c++/10/bits/locale_classes.h:40, - from /usr/include/c++/10/bits/ios_base.h:41, - from /usr/include/c++/10/streambuf:41, - from /usr/include/c++/10/bits/streambuf_iterator.h:35, - from /usr/include/c++/10/iterator:66, - from /usr/include/boost/iterator/iterator_traits.hpp:10, - from /usr/include/boost/range/mutable_iterator.hpp:23, - from /usr/include/boost/range/iterator.hpp:20, - from /usr/include/boost/range/begin.hpp:20, - from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, - from /usr/include/boost/algorithm/string/join.hpp:15, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: -/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 - 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 68 | __bos (__s), __fmt, __va_arg_pack ()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] - 24 | snprintf(output, 5, " %3d", value); - | ^~~ -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] - 24 | snprintf(output, 5, " %3d", value); - | ^~~~~~ -In file included from /usr/include/stdio.h:867, - from /usr/include/c++/10/cstdio:42, - from /usr/include/c++/10/ext/string_conversions.h:43, - from /usr/include/c++/10/bits/basic_string.h:6545, - from /usr/include/c++/10/string:55, - from /usr/include/c++/10/bits/locale_classes.h:40, - from /usr/include/c++/10/bits/ios_base.h:41, - from /usr/include/c++/10/streambuf:41, - from /usr/include/c++/10/bits/streambuf_iterator.h:35, - from /usr/include/c++/10/iterator:66, - from /usr/include/boost/iterator/iterator_traits.hpp:10, - from /usr/include/boost/range/mutable_iterator.hpp:23, - from /usr/include/boost/range/iterator.hpp:20, - from /usr/include/boost/range/begin.hpp:20, - from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, - from /usr/include/boost/algorithm/string/join.hpp:15, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: -/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 - 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 68 | __bos (__s), __fmt, __va_arg_pack ()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SDSLines(const RDKit::ROMol&)': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] - 24 | snprintf(output, 5, " %3d", value); - | ^~~ -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] - 24 | snprintf(output, 5, " %3d", value); - | ^~~~~~ -In file included from /usr/include/stdio.h:867, - from /usr/include/c++/10/cstdio:42, - from /usr/include/c++/10/ext/string_conversions.h:43, - from /usr/include/c++/10/bits/basic_string.h:6545, - from /usr/include/c++/10/string:55, - from /usr/include/c++/10/bits/locale_classes.h:40, - from /usr/include/c++/10/bits/ios_base.h:41, - from /usr/include/c++/10/streambuf:41, - from /usr/include/c++/10/bits/streambuf_iterator.h:35, - from /usr/include/c++/10/iterator:66, - from /usr/include/boost/iterator/iterator_traits.hpp:10, - from /usr/include/boost/range/mutable_iterator.hpp:23, - from /usr/include/boost/range/iterator.hpp:20, - from /usr/include/boost/range/begin.hpp:20, - from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, - from /usr/include/boost/algorithm/string/join.hpp:15, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: -/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 - 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 68 | __bos (__s), __fmt, __va_arg_pack ()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000StringPropLines(unsigned int, const RDKit::ROMol&, const string&, const string&, unsigned int)': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] - 24 | snprintf(output, 5, " %3d", value); - | ^~~ -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] - 24 | snprintf(output, 5, " %3d", value); - | ^~~~~~ -In file included from /usr/include/stdio.h:867, - from /usr/include/c++/10/cstdio:42, - from /usr/include/c++/10/ext/string_conversions.h:43, - from /usr/include/c++/10/bits/basic_string.h:6545, - from /usr/include/c++/10/string:55, - from /usr/include/c++/10/bits/locale_classes.h:40, - from /usr/include/c++/10/bits/ios_base.h:41, - from /usr/include/c++/10/streambuf:41, - from /usr/include/c++/10/bits/streambuf_iterator.h:35, - from /usr/include/c++/10/iterator:66, - from /usr/include/boost/iterator/iterator_traits.hpp:10, - from /usr/include/boost/range/mutable_iterator.hpp:23, - from /usr/include/boost/range/iterator.hpp:20, - from /usr/include/boost/range/begin.hpp:20, - from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, - from /usr/include/boost/algorithm/string/join.hpp:15, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: -/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 - 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 68 | __bos (__s), __fmt, __va_arg_pack ()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SNCLines(const RDKit::ROMol&)': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] - 24 | snprintf(output, 5, " %3d", value); - | ^~~ -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] - 24 | snprintf(output, 5, " %3d", value); - | ^~~~~~ -In file included from /usr/include/stdio.h:867, - from /usr/include/c++/10/cstdio:42, - from /usr/include/c++/10/ext/string_conversions.h:43, - from /usr/include/c++/10/bits/basic_string.h:6545, - from /usr/include/c++/10/string:55, - from /usr/include/c++/10/bits/locale_classes.h:40, - from /usr/include/c++/10/bits/ios_base.h:41, - from /usr/include/c++/10/streambuf:41, - from /usr/include/c++/10/bits/streambuf_iterator.h:35, - from /usr/include/c++/10/iterator:66, - from /usr/include/boost/iterator/iterator_traits.hpp:10, - from /usr/include/boost/range/mutable_iterator.hpp:23, - from /usr/include/boost/range/iterator.hpp:20, - from /usr/include/boost/range/begin.hpp:20, - from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, - from /usr/include/boost/algorithm/string/join.hpp:15, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: -/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 - 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 68 | __bos (__s), __fmt, __va_arg_pack ()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SLBLines(const RDKit::ROMol&)': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] - 24 | snprintf(output, 5, " %3d", value); - | ^~~ -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] - 24 | snprintf(output, 5, " %3d", value); - | ^~~~~~ -In file included from /usr/include/stdio.h:867, - from /usr/include/c++/10/cstdio:42, - from /usr/include/c++/10/ext/string_conversions.h:43, - from /usr/include/c++/10/bits/basic_string.h:6545, - from /usr/include/c++/10/string:55, - from /usr/include/c++/10/bits/locale_classes.h:40, - from /usr/include/c++/10/bits/ios_base.h:41, - from /usr/include/c++/10/streambuf:41, - from /usr/include/c++/10/bits/streambuf_iterator.h:35, - from /usr/include/c++/10/iterator:66, - from /usr/include/boost/iterator/iterator_traits.hpp:10, - from /usr/include/boost/range/mutable_iterator.hpp:23, - from /usr/include/boost/range/iterator.hpp:20, - from /usr/include/boost/range/begin.hpp:20, - from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, - from /usr/include/boost/algorithm/string/join.hpp:15, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: -/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 - 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 68 | __bos (__s), __fmt, __va_arg_pack ()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SPLLines(const RDKit::ROMol&)': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:25: warning: '%3d' directive output may be truncated writing between 3 and 9 bytes into a region of size 4 [-Wformat-truncation=] - 24 | snprintf(output, 5, " %3d", value); - | ^~~ -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h:24:23: note: directive argument in the range [-23342212, 23342214] - 24 | snprintf(output, 5, " %3d", value); - | ^~~~~~ -In file included from /usr/include/stdio.h:867, - from /usr/include/c++/10/cstdio:42, - from /usr/include/c++/10/ext/string_conversions.h:43, - from /usr/include/c++/10/bits/basic_string.h:6545, - from /usr/include/c++/10/string:55, - from /usr/include/c++/10/bits/locale_classes.h:40, - from /usr/include/c++/10/bits/ios_base.h:41, - from /usr/include/c++/10/streambuf:41, - from /usr/include/c++/10/bits/streambuf_iterator.h:35, - from /usr/include/c++/10/iterator:66, - from /usr/include/boost/iterator/iterator_traits.hpp:10, - from /usr/include/boost/range/mutable_iterator.hpp:23, - from /usr/include/boost/range/iterator.hpp:20, - from /usr/include/boost/range/begin.hpp:20, - from /usr/include/boost/algorithm/string/detail/sequence.hpp:17, - from /usr/include/boost/algorithm/string/join.hpp:15, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: -/usr/include/i386-linux-gnu/bits/stdio2.h:67:35: note: '__builtin___snprintf_chk' output between 5 and 11 bytes into a destination of size 5 - 67 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 68 | __bos (__s), __fmt, __va_arg_pack ()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 186 | off_type py_pos = bp::extract(py_tell()); - | ^ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 156 | off_type py_pos = bp::extract(py_tell()); - | ^ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 404 | result = off_type(bp::extract(py_tell())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDWriter.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SDWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/SDWriter.cpp -[ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp -[ 49%] Linking CXX shared module ../../../rdkit/Chem/rdchem.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdchem.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdchem.so CMakeFiles/rdchem.dir/rdchem.cpp.o CMakeFiles/rdchem.dir/Table.cpp.o CMakeFiles/rdchem.dir/Atom.cpp.o CMakeFiles/rdchem.dir/Bond.cpp.o CMakeFiles/rdchem.dir/Mol.cpp.o CMakeFiles/rdchem.dir/Conformer.cpp.o CMakeFiles/rdchem.dir/RingInfo.cpp.o CMakeFiles/rdchem.dir/EditableMol.cpp.o CMakeFiles/rdchem.dir/MonomerInfo.cpp.o CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o CMakeFiles/rdchem.dir/MolBundle.cpp.o CMakeFiles/rdchem.dir/StereoGroup.cpp.o CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o CMakeFiles/rdchem.dir/Chirality.cpp.o ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 49%] Built target rdchem -[ 49%] Building CXX object 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-I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FileParsers.dir/PDBWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/PDBWriter.cpp -[ 50%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILEPARSERS_BUILD -DRDK_32BIT_BUILD 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../../../lib/libRDKitFileParsers.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitFileParsers.so.1 -o ../../../lib/libRDKitFileParsers.so.1.2020.09.4 CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o CMakeFiles/FileParsers.dir/MolFileParser.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 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../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1 ../../../lib/libRDKitForceFieldHelpers.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 52%] Built target ForceFieldHelpers -make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/depend -make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend -make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make 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/build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/depend.internal". -Scanning dependencies of target rdForceFieldHelpers -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -Scanning dependencies of target DistGeometry -Scanning dependencies of target rdForceField -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 52%] Building CXX object Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdForceFieldHelpers_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp -[ 52%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o -[ 52%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o -[ 52%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o -[ 52%] Building CXX object Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/ForceField.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DistGeom/DistViolationContrib.cpp -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DistGeom/DistGeomUtils.cpp -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdForceField_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdForceField.dir/ForceField.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DistGeom/TriangleSmooth.cpp -[ 53%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DistGeom/ChiralViolationContrib.cpp -Scanning dependencies of target O3AAlign -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 53%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DO3AAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/O3AAlignMolecules.cpp cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1 ../../../lib/libRDKitFileParsers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 53%] Built target FileParsers make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/depend +make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend +make -f Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/External/CoordGen /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/depend.internal". -Scanning dependencies of target testCoordGen -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 53%] Building CXX object External/CoordGen/CMakeFiles/testCoordGen.dir/test.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCoordGen.dir/test.cpp.o -c /build/reproducible-path/rdkit-202009.4/External/CoordGen/test.cpp -make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/UFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/DependInfo.cmake --color= Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/UFF/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend.internal". -Scanning dependencies of target testUFFForceField -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 54%] Building CXX object Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/UFF && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/testUFFForceField.cpp -make -f Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/depend.internal". Scanning dependencies of target graphmolAdjustQueryCatch make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 54%] Building CXX object Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o +[ 53%] Building CXX object Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_adjustquery.cpp +Scanning dependencies of target testUFFForceField +Scanning dependencies of target testCoordGen +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 53%] Building CXX object External/CoordGen/CMakeFiles/testCoordGen.dir/test.cpp.o +[ 54%] Building CXX object Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/UFF && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF/testUFFForceField.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCoordGen.dir/test.cpp.o -c /build/reproducible-path/rdkit-202009.4/External/CoordGen/test.cpp +[ 55%] Building CXX object Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/catch_main.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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CMakeFiles/testCIPLabeler.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now 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/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 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 56%] Built target testCIPLabeler make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/DependInfo.cmake --color= @@ -6104,7 +6109,7 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 54%] Building CXX object Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o +[ 56%] Building CXX object Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_sgroups.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, @@ -6120,13 +6125,24 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/Chirality.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ +make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake --color= /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend.internal". +Scanning dependencies of target graphmolTestsCatch +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 56%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_graphmol.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6140,43 +6156,39 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/StereoGroup.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 54%] Linking CXX shared library ../../lib/libRDKitDistGeometry.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeometry.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDistGeometry.so.1 -o ../../lib/libRDKitDistGeometry.so.1.2020.09.4 CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../lib/libRDKitForceField.so.1.2020.09.4 ../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../lib/libRDKitDistGeometry.so.1 ../../lib/libRDKitDistGeometry.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 54%] Built target DistGeometry -make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend.internal". -Scanning dependencies of target graphmolTestsCatch -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 54%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_graphmol.cpp -/build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp: In member function 'double ForceFields::PyForceField::calcEnergyWithPos(const boost::python::api::object&)': -/build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp:136:12: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 136 | c[i] = python::extract(pos[i]); -/build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp: In member function 'PyObject* ForceFields::PyForceField::calcGradWithPos(const boost::python::api::object&)': -/build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp:172:12: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 172 | c[i] = python::extract(pos[i]); -[ 54%] Linking CXX shared library ../../../lib/libRDKitO3AAlign.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitO3AAlign.so.1 -o ../../../lib/libRDKitO3AAlign.so.1.2020.09.4 CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitO3AAlign.so.1.2020.09.4 ../../../lib/libRDKitO3AAlign.so.1 ../../../lib/libRDKitO3AAlign.so +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SubstanceGroup.cpp:12: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 57%] Linking CXX shared library ../../../lib/libRDKitSubstructLibrary.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitSubstructLibrary.so.1 -o ../../../lib/libRDKitSubstructLibrary.so.1.2020.09.4 CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitSubstructLibrary.so.1.2020.09.4 ../../../lib/libRDKitSubstructLibrary.so.1 ../../../lib/libRDKitSubstructLibrary.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 54%] Built target O3AAlign +[ 57%] Built target SubstructLibrary make -f Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/DependInfo.cmake --color= @@ -6186,25 +6198,9 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 54%] Building CXX object Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o +[ 57%] Building CXX object Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_chirality.cpp -[ 55%] Building CXX object Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/catch_main.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolAdjustQueryCatch.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_main.cpp -[ 55%] Linking CXX executable testCoordGen -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoordGen.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testCoordGen.dir/test.cpp.o -o testCoordGen /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl -lpthread -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 55%] Built target testCoordGen -[ 55%] Linking CXX shared module ../../../../rdkit/Chem/rdForceFieldHelpers.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdForceFieldHelpers.dir/link.txt --verbose=1 -[ 55%] Building CXX object Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/catch_main.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/chiralityTestsCatch.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_main.cpp -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdForceFieldHelpers.so CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o ../../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 55%] Built target rdForceFieldHelpers -[ 55%] Building CXX object Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_main.cpp.o make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/depend -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolSGroupCatch.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_main.cpp make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake --color= Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTest1.dir/depend.internal". @@ -6213,13 +6209,14 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 55%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTest1.dir/test1.cpp.o +[ 57%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTest1.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolTest1.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/test1.cpp -[ 55%] Linking CXX executable testUFFForceField -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/UFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testUFFForceField.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -o testUFFForceField ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 57%] Linking CXX shared library ../../../lib/libRDKitDistGeomHelpers.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDistGeomHelpers.so.1 -o ../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o ../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../lib/libRDKitDistGeomHelpers.so.1 ../../../lib/libRDKitDistGeomHelpers.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 55%] Built target testUFFForceField +[ 57%] Built target DistGeomHelpers make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/hanoiTest.dir/DependInfo.cmake --color= @@ -6229,13 +6226,8 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 55%] Building CXX object Code/GraphMol/CMakeFiles/hanoiTest.dir/hanoitest.cpp.o +[ 57%] Building CXX object Code/GraphMol/CMakeFiles/hanoiTest.dir/hanoitest.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/hanoiTest.dir/hanoitest.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/hanoitest.cpp -[ 55%] Linking CXX shared module ../../../rdkit/ForceField/rdForceField.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/ForceField/rdForceField.so CMakeFiles/rdForceField.dir/ForceField.cpp.o ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 55%] Built target rdForceField make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/testSGroup.dir/DependInfo.cmake --color= @@ -6245,13 +6237,8 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 55%] Building CXX object Code/GraphMol/CMakeFiles/testSGroup.dir/testSGroup.cpp.o +[ 57%] Building CXX object Code/GraphMol/CMakeFiles/testSGroup.dir/testSGroup.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testSGroup.dir/testSGroup.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/testSGroup.cpp -[ 55%] Linking CXX executable hanoiTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/hanoiTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/hanoiTest.dir/hanoitest.cpp.o -o hanoiTest ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 55%] Built target hanoiTest make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/DependInfo.cmake --color= @@ -6261,15 +6248,8 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 55%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o +[ 57%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/testPicklerGlobalSettings.cpp -[ 55%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/catch_main.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolTestsCatch.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_main.cpp -[ 55%] Linking CXX executable graphmolTest1 -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolTest1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolTest1.dir/test1.cpp.o -o graphmolTest1 ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../lib/libRDKitForceField.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl -lpthread -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 55%] Built target graphmolTest1 make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/DependInfo.cmake --color= @@ -6279,8 +6259,15 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 55%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o +[ 57%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/molopstest.cpp +[ 57%] Building CXX object Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/catch_main.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/chiralityTestsCatch.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_main.cpp +[ 57%] Linking CXX executable testUFFForceField +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/UFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testUFFForceField.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testUFFForceField.dir/testUFFForceField.cpp.o -o testUFFForceField ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 57%] 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/DependInfo.cmake --color= @@ -6290,13 +6277,26 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 55%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Conformer.h:14, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RDKitBase.h:25, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SubstanceGroup.cpp:17: +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h: In function 'void RDKit::{anonymous}::addBracketHelper(RDKit::SubstanceGroup&, boost::python::api::object)': +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:31: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:43: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +[ 57%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/testChirality.cpp -[ 55%] Linking CXX executable graphmoltestPicklerGlobalSetting -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPicklerGlobalSetting.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o -o graphmoltestPicklerGlobalSetting ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 57%] Linking CXX executable testCoordGen +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoordGen.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testCoordGen.dir/test.cpp.o -o testCoordGen /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl -lpthread make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 55%] Built target graphmoltestPicklerGlobalSetting +[ 57%] 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/DependInfo.cmake --color= @@ -6306,13 +6306,8 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 55%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o +[ 57%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/testPickler.cpp -[ 55%] Linking CXX executable testSGroup -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSGroup.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testSGroup.dir/testSGroup.cpp.o -o testSGroup ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 55%] Built target testSGroup make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/molBundleTest.dir/DependInfo.cmake --color= @@ -6322,13 +6317,10 @@ make[4]: 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'/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 56%] Built target molBundleTest +[ 58%] Building CXX object Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_main.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolSGroupCatch.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_main.cpp make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/DependInfo.cmake --color= @@ -6338,13 +6330,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 56%] Building CXX object Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o +[ 58%] Building CXX object Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/resMolSupplierTest.cpp -[ 56%] Linking CXX executable graphmolAdjustQueryCatch -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolAdjustQueryCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o CMakeFiles/graphmolAdjustQueryCatch.dir/catch_main.cpp.o -o graphmolAdjustQueryCatch ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 58%] Linking CXX executable hanoiTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/hanoiTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/hanoiTest.dir/hanoitest.cpp.o -o hanoiTest ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 56%] Built target graphmolAdjustQueryCatch +[ 58%] Built target hanoiTest 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/DependInfo.cmake --color= @@ -6354,13 +6346,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 56%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/testDepictor.cpp.o +[ 58%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/testDepictor.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testDepictor.dir/testDepictor.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor/testDepictor.cpp -[ 56%] Linking CXX executable chiralityTestsCatch -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/chiralityTestsCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o CMakeFiles/chiralityTestsCatch.dir/catch_main.cpp.o -o chiralityTestsCatch ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 58%] Linking CXX shared module ../../../rdkit/Chem/rdchem.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdchem.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdchem.so CMakeFiles/rdchem.dir/rdchem.cpp.o CMakeFiles/rdchem.dir/Table.cpp.o CMakeFiles/rdchem.dir/Atom.cpp.o CMakeFiles/rdchem.dir/Bond.cpp.o CMakeFiles/rdchem.dir/Mol.cpp.o CMakeFiles/rdchem.dir/Conformer.cpp.o CMakeFiles/rdchem.dir/RingInfo.cpp.o CMakeFiles/rdchem.dir/EditableMol.cpp.o CMakeFiles/rdchem.dir/MonomerInfo.cpp.o CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o CMakeFiles/rdchem.dir/MolBundle.cpp.o CMakeFiles/rdchem.dir/StereoGroup.cpp.o CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o CMakeFiles/rdchem.dir/Chirality.cpp.o ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 56%] Built target chiralityTestsCatch +[ 58%] Built target rdchem 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake --color= @@ -6370,13 +6362,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 57%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o +[ 59%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD 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../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 59%] Linking CXX executable graphmoltestPicklerGlobalSetting +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPicklerGlobalSetting.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now 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/usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 58%] Built target resMolSupplierTest +[ 59%] Built target graphmoltestPicklerGlobalSetting 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake --color= @@ -6386,13 +6378,13 @@ make[4]: Leaving directory 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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/catch_tests.cpp -[ 58%] Linking CXX executable graphmolSGroupCatch -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolSGroupCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated 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/usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 59%] Linking CXX executable molBundleTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/molBundleTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o -o molBundleTest ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 58%] Built target graphmolSGroupCatch +[ 59%] Built target molBundleTest 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/DependInfo.cmake --color= @@ -6402,13 +6394,15 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 58%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/test.cpp.o +[ 59%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/test.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/smiTest1.dir/test.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse/test.cpp -[ 58%] Linking CXX executable testDepictor -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDepictor.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testDepictor.dir/testDepictor.cpp.o -o testDepictor ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 59%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/catch_main.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/graphmolTestsCatch.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_main.cpp +[ 59%] Linking CXX executable graphmolTest1 +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolTest1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolTest1.dir/test1.cpp.o -o graphmolTest1 ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../lib/libRDKitForceField.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl -lpthread make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 58%] Built target testDepictor +[ 59%] Built target graphmolTest1 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/DependInfo.cmake --color= @@ -6418,13 +6412,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 58%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o +[ 59%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/testMol2ToMol.cpp -[ 59%] Linking CXX executable graphmoltestPickler -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPickler.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -o graphmoltestPickler ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 60%] Linking CXX executable resMolSupplierTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/resMolSupplierTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o -o resMolSupplierTest ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 59%] Built target graphmoltestPickler +[ 60%] Built target resMolSupplierTest 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/DependInfo.cmake --color= @@ -6434,13 +6428,11 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 59%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/test1.cpp.o +[ 60%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/fileParsersTest1.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/test1.cpp -[ 59%] Linking CXX executable testMol2ToMol -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMol2ToMol.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o -o testMol2ToMol ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 59%] Built target testMol2ToMol +[ 60%] Linking CXX executable testSGroup +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSGroup.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testSGroup.dir/testSGroup.cpp.o -o testSGroup ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/DependInfo.cmake --color= @@ -6450,13 +6442,10 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 59%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o +[ 60%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testPropertyLists.dir/testPropertyLists.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/testPropertyLists.cpp -[ 59%] Linking CXX executable graphmoltestChirality -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestChirality.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o -o graphmoltestChirality ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 59%] Built target graphmoltestChirality +[ 60%] Built target testSGroup 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake --color= @@ -6466,13 +6455,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 59%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o +[ 60%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/testMolSupplier.cpp -[ 59%] Linking CXX executable cxsmilesTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/cxsmilesTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o -o cxsmilesTest ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 60%] Linking CXX executable testMol2ToMol +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMol2ToMol.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o -o testMol2ToMol ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 59%] Built target cxsmilesTest +[ 60%] Built target testMol2ToMol 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/DependInfo.cmake --color= @@ -6482,17 +6471,17 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 59%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o +[ 60%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/testGeneralFileReader.cpp /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/testMolSupplier.cpp: In function 'void testGitHub3517()': /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/testMolSupplier.cpp:2805:10: warning: unused variable 'l' [-Wunused-variable] 2805 | size_t l = sdsup.length(); | ^ -[ 60%] Linking CXX executable graphmolTestsCatch -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolTestsCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o CMakeFiles/graphmolTestsCatch.dir/catch_main.cpp.o -o graphmolTestsCatch ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 60%] Linking CXX executable testDepictor +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDepictor.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testDepictor.dir/testDepictor.cpp.o -o testDepictor ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 60%] Built target graphmolTestsCatch +[ 60%] Built target testDepictor 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/DependInfo.cmake --color= @@ -6504,11 +6493,11 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 61%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/testSequence.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testSequence.dir/testSequence.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/testSequence.cpp -[ 61%] Linking CXX executable testSequence -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSequence.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testSequence.dir/testSequence.cpp.o -o testSequence ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 61%] Linking CXX executable cxsmilesTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/cxsmilesTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o -o cxsmilesTest ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 61%] Built target testSequence +[ 61%] Built target cxsmilesTest 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/DependInfo.cmake --color= @@ -6520,11 +6509,11 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 62%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/testMolWriter.cpp -[ 63%] Linking CXX executable testGeneralFileReader -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGeneralFileReader.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o -o testGeneralFileReader ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitRDStreams.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -lpthread /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 62%] Linking CXX executable testSequence +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSequence.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testSequence.dir/testSequence.cpp.o -o testSequence ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 63%] Built target testGeneralFileReader +[ 62%] Built target testSequence 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/DependInfo.cmake --color= @@ -6534,15 +6523,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/testTpls.cpp.o +[ 62%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/testTpls.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testTplParser.dir/testTpls.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/testTpls.cpp -[ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/catch_main.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testPropertyLists.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/catch_main.cpp -[ 63%] Linking CXX executable testTplParser -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testTplParser.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testTplParser.dir/testTpls.cpp.o -o testTplParser ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 63%] Linking CXX executable testGeneralFileReader +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGeneralFileReader.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o -o testGeneralFileReader ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitRDStreams.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -lpthread /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 63%] Built target testTplParser +[ 63%] Built target testGeneralFileReader 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/DependInfo.cmake --color= @@ -6554,11 +6541,11 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/testExtendedStereoParsing.cpp -[ 64%] Linking CXX executable testExtendedStereoParsing -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testExtendedStereoParsing.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o -o testExtendedStereoParsing ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 64%] Linking CXX executable graphmoltestPickler +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPickler.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmoltestPickler.dir/testPickler.cpp.o -o graphmoltestPickler ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 64%] Built target testExtendedStereoParsing +[ 64%] Built target graphmoltestPickler 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/DependInfo.cmake --color= @@ -6570,11 +6557,11 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 64%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/testMultithreadedMolSupplier.cpp -[ 64%] Linking CXX executable testMolSupplier -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolSupplier.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o -o testMolSupplier ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitRDStreams.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -lpthread /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 64%] Linking CXX executable graphmoltestChirality +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestChirality.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmoltestChirality.dir/testChirality.cpp.o -o graphmoltestChirality ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 64%] Built target testMolSupplier +[ 64%] Built target graphmoltestChirality 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/DependInfo.cmake --color= @@ -6586,11 +6573,13 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 64%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/file_parsers_catch.cpp -[ 64%] Linking CXX executable testMolWriter -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolWriter.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -o testMolWriter ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 64%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/catch_main.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testPropertyLists.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/catch_main.cpp +[ 64%] Linking CXX executable testTplParser +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testTplParser.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testTplParser.dir/testTpls.cpp.o -o testTplParser ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 64%] Built target testMolWriter +[ 64%] Built target testTplParser 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/DependInfo.cmake --color= @@ -6602,11 +6591,11 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 64%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Substruct/catch_tests.cpp -[ 64%] Linking CXX executable testMultithreadedMolSupplier -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultithreadedMolSupplier.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o -o testMultithreadedMolSupplier ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitRDStreams.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl -lpthread /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 65%] Linking CXX executable testExtendedStereoParsing +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testExtendedStereoParsing.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o -o testExtendedStereoParsing ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 64%] Built target testMultithreadedMolSupplier +[ 65%] Built target testExtendedStereoParsing 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/DependInfo.cmake --color= @@ -6616,13 +6605,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 64%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/test1.cpp.o +[ 65%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testSubstructMatch.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Substruct/test1.cpp -[ 64%] Linking CXX executable smiTest1 -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTest1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/smiTest1.dir/test.cpp.o -o smiTest1 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 65%] Linking CXX executable graphmolAdjustQueryCatch +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolAdjustQueryCatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o CMakeFiles/graphmolAdjustQueryCatch.dir/catch_main.cpp.o -o graphmolAdjustQueryCatch ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 64%] Built target smiTest1 +[ 65%] Built target graphmolAdjustQueryCatch make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/DependInfo.cmake --color= @@ -6632,13 +6621,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 64%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Crippen.cpp.o +[ 65%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Crippen.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/Crippen.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Crippen.cpp -[ 65%] Linking CXX executable graphmolMolOpsTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolMolOpsTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -o graphmolMolOpsTest ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 65%] Linking CXX executable testMultithreadedMolSupplier +cd 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/usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl -lpthread /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 65%] Built target graphmolMolOpsTest +[ 65%] Built target testMultithreadedMolSupplier 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/DependInfo.cmake --color= @@ -6650,13 +6639,11 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 65%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms/catch_tests.cpp -[ 65%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/BCUT.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/BCUT.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/BCUT.cpp -[ 66%] Linking CXX executable fileParsersTest1 -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/fileParsersTest1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/fileParsersTest1.dir/test1.cpp.o -o fileParsersTest1 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 65%] Linking CXX executable chiralityTestsCatch +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/chiralityTestsCatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o CMakeFiles/chiralityTestsCatch.dir/catch_main.cpp.o -o chiralityTestsCatch ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 66%] Built target fileParsersTest1 +[ 65%] Built target chiralityTestsCatch 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/DependInfo.cmake --color= @@ -6666,13 +6653,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 66%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o +[ 65%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms/testChemTransforms.cpp -[ 66%] Linking CXX executable smiTestCatch -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTestCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o -o smiTestCatch ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 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-D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/fileParsersCatchTest.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/catch_main.cpp -[ 66%] Linking CXX executable testSubstructMatch -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubstructMatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testSubstructMatch.dir/test1.cpp.o -o testSubstructMatch ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 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cmake_link_script CMakeFiles/testMolWriter.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolWriter.dir/testMolWriter.cpp.o -o testMolWriter ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 66%] Built target testSubstructMatch +[ 65%] Built target testMolWriter 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/DependInfo.cmake --color= @@ -6700,15 +6685,15 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 66%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/test1.cpp.o +[ 65%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ 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CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/BCUT.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/BCUT.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/BCUT.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolSGroupCatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o CMakeFiles/graphmolSGroupCatch.dir/catch_main.cpp.o -o graphmolSGroupCatch ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 67%] Built target testPropertyLists +[ 65%] Built target graphmolSGroupCatch 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/DependInfo.cmake --color= @@ -6718,13 +6703,13 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 67%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o +[ 65%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/rdfragcatalog.cpp -[ 67%] Linking CXX executable filterCatalogTest +[ 65%] Linking CXX executable filterCatalogTest cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/filterCatalogTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o -o filterCatalogTest ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 67%] Built target filterCatalogTest +[ 65%] Built target filterCatalogTest 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/DependInfo.cmake --color= @@ -6734,10 +6719,8 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 67%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o +[ 65%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/catch_tests.cpp -[ 67%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolSurf.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/MolSurf.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/MolSurf.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6760,20 +6743,13 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 67%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o +[ 65%] Linking CXX executable testSubstructMatch +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubstructMatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testSubstructMatch.dir/test1.cpp.o -o testSubstructMatch ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 65%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp -[ 67%] Linking CXX executable testFragCatalog -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFragCatalog.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testFragCatalog.dir/test1.cpp.o -o testFragCatalog ../../../lib/libRDKitFragCatalog.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 67%] Built target testFragCatalog -[ 67%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragCatParams.cpp -[ 67%] Linking CXX executable testChemTransforms -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemTransforms.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o -o testChemTransforms ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 67%] Built target testChemTransforms +[ 65%] Built target testSubstructMatch 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/DependInfo.cmake --color= @@ -6783,8 +6759,58 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 67%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/test1.cpp.o +[ 65%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 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smiTest1 +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTest1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/smiTest1.dir/test.cpp.o -o smiTest1 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 66%] Linking CXX executable testFragCatalog +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFragCatalog.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testFragCatalog.dir/test1.cpp.o -o testFragCatalog ../../../lib/libRDKitFragCatalog.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 66%] Built target graphmolTestsCatch +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend.internal". +[ 66%] Built target smiTest1 +make -f Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build.make 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Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/depend.internal". +Scanning dependencies of target testMHFPFingerprint +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build +make[4]: 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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/testMHFPFingerprint.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 66%] Built target testFragCatalog +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/depend.internal". +Scanning dependencies of target testMolTransforms +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 66%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/test1.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMolTransforms.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms/test1.cpp +[ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/catch_main.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/fileParsersCatchTest.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers/catch_main.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6806,6 +6832,92 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 66%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF/testMultiThread.cpp +[ 66%] Linking CXX executable testMHFPFingerprint +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMHFPFingerprint.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now 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/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFHelpers.cpp +[ 66%] Linking CXX executable testMolTransforms +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolTransforms.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro 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/usr/lib/i386-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 66%] Built target testMolTransforms +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake --color= +Dependee 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Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 66%] Building CXX object Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 67%] Built target fileParsersTest1 +make -f 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newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/depend.internal". +Scanning dependencies of target testCrystalForceField +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 67%] Building CXX object Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF/testCrystalFF.cpp +[ 67%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolSurf.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/MolSurf.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/MolSurf.cpp +[ 67%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragCatParams.cpp +[ 67%] Linking CXX executable testMMFFForceFieldHelpersMultiThread +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o -o testMMFFForceFieldHelpersMultiThread ../../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 67%] Built target testMMFFForceFieldHelpersMultiThread +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/depend.internal". +Scanning dependencies of target testDistGeomHelpers +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 67%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6828,9 +6940,75 @@ 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ [ 67%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Lipinski.cpp.o +[ 67%] Linking CXX executable testCrystalForceField cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/Lipinski.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Lipinski.cpp -[ 67%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -o testCrystalForceField ../../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 67%] Built target testCrystalForceField +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/depend.internal". +Scanning dependencies of target rdDistGeom +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 67%] Building CXX object Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap && /usr/bin/c++ -DBOOST_PYTHON_MAX_ARITY=32 -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdDistGeom_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp +[ 68%] Linking CXX executable testMMFFForceFieldHelpers +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o -o testMMFFForceFieldHelpers ../../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 68%] Built target testMMFFForceFieldHelpers +make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/depend +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/DependInfo.cmake" is newer than depender 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../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 69%] Built target testUFFForceFieldHelpers +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMolCatalog.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog/test1.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6852,12 +7030,6 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 67%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragFPGenerator.cpp -[ 67%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/ConnectivityDescriptors.cpp -[ 67%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MQN.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/MQN.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/MQN.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -6872,141 +7044,18 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragFPGenerator.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 67%] Linking CXX executable substructTestCatch -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructTestCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o -o substructTestCatch ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 67%] Built target substructTestCatch -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend.internal". -Scanning dependencies of target testFingerprintGenerators -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 67%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp -[ 68%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Property.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/Property.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Property.cpp -[ 68%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/AUTOCORR2D.cpp -[ 68%] Linking CXX executable chemTransformsTestCatch -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/chemTransformsTestCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/chemTransformsTestCatch.dir/catch_tests.cpp.o -o chemTransformsTestCatch ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 68%] Built target chemTransformsTestCatch -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/testMHFPFingerprint.cpp -[ 68%] Linking CXX shared module ../../../../rdkit/Chem/rdfragcatalog.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdfragcatalog.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdfragcatalog.so CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o ../../../../lib/libRDKitFragCatalog.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 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../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 69%] Built target fileParsersCatchTest -make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make 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../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 69%] Built target testFingerprints -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 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Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 69%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/test1.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMolCatalog.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog/test1.cpp -[ 69%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFingerprintGenerators.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -o testFingerprintGenerators ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 70%] Built target testFingerprintGenerators 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-202009.4/obj-i686-linux-gnu' cd 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/build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/FMCS.cpp -[ 70%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MORSE.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/MORSE.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/MORSE.cpp -[ 70%] Linking CXX executable testShapeHelpers +[ 69%] Linking CXX executable testShapeHelpers cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testShapeHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o -o testShapeHelpers ../../../lib/libRDKitShapeHelpers.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 70%] Built target testShapeHelpers +[ 69%] Built target testShapeHelpers +[ 69%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/Seed.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FMCS.dir/Seed.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Seed.cpp +[ 70%] Linking CXX executable graphmolMolOpsTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolMolOpsTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/graphmolMolOpsTest.dir/molopstest.cpp.o -o graphmolMolOpsTest ../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../lib/libRDKitDepictor.so.1.2020.09.4 ../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../lib/libRDKitAlignment.so.1.2020.09.4 ../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +In file included from /usr/include/boost/bind.hpp:30, + from /usr/include/boost/property_tree/json_parser/detail/parser.hpp:7, + from /usr/include/boost/property_tree/json_parser/detail/read.hpp:13, + from /usr/include/boost/property_tree/json_parser.hpp:16, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/FMCS.cpp:16: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 70%] Built target graphmolMolOpsTest 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/DependInfo.cmake --color= @@ -7036,21 +7098,15 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 70%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/MMPA.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMMPA_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MMPA_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MMPA.dir/MMPA.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA/MMPA.cpp -In file included from /usr/include/boost/bind.hpp:30, - from /usr/include/boost/property_tree/json_parser/detail/parser.hpp:7, - from /usr/include/boost/property_tree/json_parser/detail/read.hpp:13, - from /usr/include/boost/property_tree/json_parser.hpp:16, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/FMCS.cpp:16: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -[ 70%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/GETAWAY.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/GETAWAY.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/GETAWAY.cpp -[ 71%] Linking CXX executable testMolCatalog -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolCatalog.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now 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/usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 70%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdfragcatalog_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragFPGenerator.cpp +[ 70%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MQN.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/MQN.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/MQN.cpp +[ 70%] Linking CXX executable testFeatures +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFeatures.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testFeatures.dir/testFeatures.cpp.o -o testFeatures ../../../lib/libRDKitMolChemicalFeatures.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 71%] Built target testMolCatalog +[ 70%] Built target testFeatures 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory 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-DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Trajectory/trajectoryTest.cpp -[ 71%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/WHIM.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD 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../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 71%] Built target fpTestCatch +[ 71%] Built target testPropertyLists 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-202009.4/obj-i686-linux-gnu' cd 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cmake_link_script CMakeFiles/testMolCatalog.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolCatalog.dir/test1.cpp.o -o testMolCatalog ../../../lib/libRDKitMolCatalog.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 71%] Built target testFeatures +[ 72%] Built target testMolCatalog +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend.internal". +Scanning dependencies of target rdSubstructLibrary +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 72%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSubstructLibrary_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragFPGenerator.cpp:11: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 73%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Property.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong 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-I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/MaximumCommonSubgraph.cpp +[ 73%] Linking CXX shared module ../../../../rdkit/Chem/rdDistGeom.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated 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../../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 73%] Built target rdDistGeom 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/DependInfo.cmake --color= @@ -7096,49 +7189,35 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 72%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/test1.cpp.o +[ 74%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/test1.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/rapidjson -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/molInterchangeTest1.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange/test1.cpp -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/GETAWAY.cpp: In function 'Eigen::MatrixXd RDKit::Descriptors::{anonymous}::GetPinv(const MatrixXd&)': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/GETAWAY.cpp:285:30: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'Eigen::Index' {aka 'int'} [-Wsign-compare] - 285 | for (unsigned int i = 0; i < A.cols(); ++i) { - | ~~^~~~~~~~~~ -[ 72%] Linking CXX shared library ../../../lib/libRDKitMMPA.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMMPA.so.1 -o ../../../lib/libRDKitMMPA.so.1.2020.09.4 CMakeFiles/MMPA.dir/MMPA.cpp.o ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 74%] Linking CXX executable testDistGeomHelpers +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeomHelpers.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -o testDistGeomHelpers ../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 74%] Built target testDistGeomHelpers 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake --color= Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/depend.internal". -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMMPA.so.1.2020.09.4 ../../../lib/libRDKitMMPA.so.1 ../../../lib/libRDKitMMPA.so Scanning dependencies of target rdmolfiles make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 72%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o +[ 74%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdmolfiles.cpp -[ 72%] Built target MMPA +[ 74%] Linking CXX shared library ../../../lib/libRDKitMMPA.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMMPA.so.1 -o ../../../lib/libRDKitMMPA.so.1.2020.09.4 CMakeFiles/MMPA.dir/MMPA.cpp.o ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMMPA.so.1.2020.09.4 ../../../lib/libRDKitMMPA.so.1 ../../../lib/libRDKitMMPA.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 74%] Built target MMPA 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/DependInfo.cmake --color= Dependee 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-DBOOST_SERIALIZATION_DYN_LINK -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FMCS.dir/Seed.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Seed.cpp -[ 73%] Linking CXX executable trajectoryTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_link_script CMakeFiles/trajectoryTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -o trajectoryTest ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 73%] Built target trajectoryTest -[ 73%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/MaximumCommonSubgraph.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7152,66 +7231,48 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdmolfiles.cpp:13: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.h:36, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp:32: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ +Scanning dependencies of target testAbbreviations +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 73%] Linking CXX executable molInterchangeTest1 -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/molInterchangeTest1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molInterchangeTest1.dir/test1.cpp.o -o molInterchangeTest1 ../../../lib/libRDKitMolInterchange.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 73%] Built target molInterchangeTest1 -make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend -make[4]: Entering directory 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-DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.cpp -[ 73%] Linking CXX executable substructLibraryTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructLibraryTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o -o substructLibraryTest ../../../lib/libRDKitSubstructLibrary.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 73%] Built target substructLibraryTest -make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/depend.internal". -Scanning dependencies of target testDistGeom -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 73%] Building CXX object Code/DistGeom/CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS 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/usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testAbbreviations.dir/__/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/catch_main.cpp +[ 74%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdSubstructLibrary_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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-DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/SubstructMatchCustom.cpp -[ 74%] Linking CXX executable testDistGeom -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeom.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdfragcatalog.so CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatParams.cpp.o CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o ../../../../lib/libRDKitFragCatalog.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 74%] Built target testDistGeom -make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend +[ 74%] Built target rdfragcatalog +[ 74%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations/catch_tests.cpp +[ 75%] Linking CXX executable trajectoryTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_link_script CMakeFiles/trajectoryTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o -o trajectoryTest ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 75%] Built target trajectoryTest +make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DistGeom/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend.internal". -Scanning dependencies of target DistGeom +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend.internal". +Scanning dependencies of target testMMFFForceField make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build +make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 75%] Building CXX object Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DistGeom.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeom_EXPORTS -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DistGeom.dir/DistGeom.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/DistGeom/Wrap/DistGeom.cpp -[ 75%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Embedder.cpp +[ 75%] Building CXX object Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/testMMFFForceField.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7226,13 +7287,18 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/DistGeom/Wrap/DistGeom.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdmolfiles.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 75%] Linking CXX executable fileParsersCatchTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/fileParsersCatchTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o CMakeFiles/fileParsersCatchTest.dir/catch_main.cpp.o -o fileParsersCatchTest ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 75%] Built target fileParsersCatchTest 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake --color= @@ -7244,6 +7310,34 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 75%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA/MMPA_UnitTest.cpp +[ 75%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/AUTOCORR2D.cpp +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp:31: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 75%] Linking CXX executable substructLibraryTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructLibraryTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o -o substructLibraryTest ../../../lib/libRDKitSubstructLibrary.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 75%] Built target substructLibraryTest 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake --color= @@ -7255,12 +7349,101 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 76%] Building CXX object Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMMPA_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp -[ 77%] Linking CXX shared library ../../../lib/libRDKitFMCS.so +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp:34: +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 285 | if (df_isTextMode && c > STD_ASCII) { + | ~~^~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 297 | if ((!df_isTextMode || c <= STD_ASCII) && + | ~~^~~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 308 | if (df_isTextMode && c > STD_ASCII && + | ~~^~~~~~~~~~~ +[ 76%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION 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-DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o -c 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../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 76%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AtomFeat.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK 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'/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 76%] Built target smiTestCatch +[ 76%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/EEM.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/EEM.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/EEM.cpp +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp:11: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 76%] Linking CXX executable molInterchangeTest1 +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/molInterchangeTest1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molInterchangeTest1.dir/test1.cpp.o -o molInterchangeTest1 ../../../lib/libRDKitMolInterchange.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 76%] Built target molInterchangeTest1 +[ 77%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp +[ 77%] Linking CXX executable testMMPA +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMPA.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -o testMMPA ../../../lib/libRDKitMMPA.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 77%] Built target testMMPA +[ 77%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && 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Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/PBF.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated 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/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/PMI.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/PMI.cpp +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 186 | off_type py_pos = bp::extract(py_tell()); + | ^ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 156 | off_type py_pos = bp::extract(py_tell()); + | ^ +[ 78%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR3D.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. 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../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 404 | result = off_type(bp::extract(py_tell())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 79%] Built target rdMMPA +[ 79%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD 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-I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/testFMCS_Unit.cpp -[ 77%] Linking CXX shared module ../../../rdkit/DistanceGeometry/DistGeom.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/DistanceGeometry/DistGeom.so CMakeFiles/DistGeom.dir/DistGeom.cpp.o ../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 77%] Built target DistGeom -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend.internal". -Scanning dependencies of target rdFMCS -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 77%] Building CXX object Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK 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/build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDescriptors.so.1 -o ../../../lib/libRDKitDescriptors.so.1.2020.09.4 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/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.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7304,43 +7468,16 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1 ../../../lib/libRDKitDescriptors.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 77%] Built target Descriptors -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Test /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Test /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend.internal". -Scanning dependencies of target FMCStest -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 77%] Building CXX object Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/testFMCS.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Test && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/FMCStest.dir/testFMCS.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Test/testFMCS.cpp -[ 77%] Linking CXX executable testMMPA -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMPA.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -o testMMPA ../../../lib/libRDKitMMPA.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 77%] Built target testMMPA -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend.internal". -Scanning dependencies of target MolHash -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 77%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/hashfunctions.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolHash.dir/hashfunctions.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash/hashfunctions.cpp +[ 79%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/RDF.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/RDF.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/RDF.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7355,21 +7492,151 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp:10: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MaeMolSupplier.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 77%] Linking CXX shared library ../../../lib/libRDKitDistGeomHelpers.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDistGeomHelpers.so.1 -o ../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o ../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../lib/libRDKitDistGeomHelpers.so.1 ../../../lib/libRDKitDistGeomHelpers.so +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp:22: +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 285 | if (df_isTextMode && c > STD_ASCII) { + | ~~^~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 297 | if ((!df_isTextMode || c <= STD_ASCII) && + | ~~^~~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 308 | if (df_isTextMode && c > STD_ASCII && + | ~~^~~~~~~~~~~ +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MaeMolSupplier.cpp:22: +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 285 | if (df_isTextMode && c > STD_ASCII) { + | ~~^~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 297 | if ((!df_isTextMode || c <= STD_ASCII) && + | ~~^~~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 308 | if (df_isTextMode && c > STD_ASCII && + | ~~^~~~~~~~~~~ +[ 79%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MORSE.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/MORSE.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/MORSE.cpp +[ 79%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/GETAWAY.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 79%] Linking CXX executable fpTestCatch +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/fpTestCatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o -o fpTestCatch ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SDMolSupplier.cpp:12: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 186 | off_type py_pos = bp::extract(py_tell()); + | ^ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 156 | off_type py_pos = bp::extract(py_tell()); + | ^ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 77%] Built target DistGeomHelpers -[ 78%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/normalize.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolHash.dir/normalize.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash/normalize.cpp +[ 79%] Built target rdSubstructLibrary +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend.internal". +Scanning dependencies of target rdFMCS +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 79%] Building CXX object Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o +cd 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'/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 79%] Building CXX object Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/testFMCS.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Test && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/FMCStest.dir/testFMCS.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Test/testFMCS.cpp +[ 79%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/CoulombMat.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Descriptors.dir/CoulombMat.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/CoulombMat.cpp +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 404 | result = off_type(bp::extract(py_tell())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 186 | off_type py_pos = bp::extract(py_tell()); + | ^ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 156 | off_type py_pos = bp::extract(py_tell()); + | ^ +[ 79%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o +[ 79%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD 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-DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SmilesMolSupplier.cpp +[ 79%] Linking CXX executable testMMFFForceField +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceField.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -o testMMFFForceField ../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 404 | result = off_type(bp::extract(py_tell())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 79%] Linking CXX executable substructTestCatch +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructTestCatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o 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'/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 79%] Built target testMMFFForceField +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend.internal". +Scanning dependencies of target RGroupDecomposition +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build +make[4]: Entering directory 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-I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/RGroupUtils.cpp +[ 79%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SmilesWriter.cpp +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/GETAWAY.cpp: In function 'Eigen::MatrixXd RDKit::Descriptors::{anonymous}::GetPinv(const MatrixXd&)': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/GETAWAY.cpp:285:30: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'Eigen::Index' {aka 'int'} [-Wsign-compare] + 285 | for (unsigned int i = 0; i < A.cols(); ++i) { + | ~~^~~~~~~~~~ /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Test/testFMCS.cpp: In function 'std::string testChEMBL_Txt(const char*, double, const char*)': /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Test/testFMCS.cpp:545:23: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'std::vector >::size_type' {aka 'unsigned int'} [-Wformat=] 545 | fprintf(fres, "%s;%lu;%.1f;%.4f;%u;%u;%s;", test, mols.size(), th, sec, @@ -7409,50 +7676,10 @@ | | | | long unsigned int std::vector >::size_type {aka unsigned int} | %u -[ 78%] Linking CXX shared module ../../../../rdkit/Chem/rdMMPA.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMMPA.so CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o ../../../../lib/libRDKitMMPA.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/RGroupUtils.cpp -[ 78%] Linking CXX shared library ../../../lib/libRDKitMolHash.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared 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/usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -[ 79%] Linking CXX executable testFMCS -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFMCS.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 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/usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 79%] Built target FMCStest -[ 79%] Built target testFMCS -[ 79%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SDWriter.cpp +[ 79%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/TDTWriter.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7467,13 +7694,15 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp:13: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 80%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/PDBWriter.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7488,24 +7717,13 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SDMolSupplier.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/TDTMolSupplier.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp:22: -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 285 | if (df_isTextMode && c > STD_ASCII) { - | ~~^~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 297 | if ((!df_isTextMode || c <= STD_ASCII) && - | ~~^~~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 308 | if (df_isTextMode && c > STD_ASCII && - | ~~^~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7520,98 +7738,13 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MaeMolSupplier.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SmilesMolSupplier.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 79%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/TDTMolSupplier.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MaeMolSupplier.cpp:22: -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 285 | if (df_isTextMode && c > STD_ASCII) { - | ~~^~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 297 | if ((!df_isTextMode || c <= STD_ASCII) && - | ~~^~~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 308 | if (df_isTextMode && c > STD_ASCII && - | ~~^~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 186 | off_type py_pos = bp::extract(py_tell()); - | ^ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 156 | off_type py_pos = bp::extract(py_tell()); - | ^ -[ 79%] Linking CXX shared module ../../../../rdkit/Chem/rdFMCS.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdFMCS.so CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o ../../../../lib/libRDKitFMCS.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 79%] Built target rdFMCS -make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend.internal". -Scanning dependencies of target testMMFFForceField -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 79%] Building CXX object Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF/testMMFFForceField.cpp -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 404 | result = off_type(bp::extract(py_tell())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend.internal". -Scanning dependencies of target ChemReactions -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 80%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Reaction.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/Reaction.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/Reaction.cpp -[ 80%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SmilesMolSupplier.cpp -[ 81%] Linking CXX shared library ../../../lib/libRDKitRGroupDecomposition.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRGroupDecomposition.so.1 -o ../../../lib/libRDKitRGroupDecomposition.so.1.2020.09.4 CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o ../../../lib/libRDKitFMCS.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitRGroupDecomposition.so.1.2020.09.4 ../../../lib/libRDKitRGroupDecomposition.so.1 ../../../lib/libRDKitRGroupDecomposition.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 81%] Built target RGroupDecomposition -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend.internal". -Scanning dependencies of target testCoulombMat -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 81%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/testCoulombMat.cpp -[ 81%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations/catch_tests.cpp -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 186 | off_type py_pos = bp::extract(py_tell()); - | ^ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 156 | off_type py_pos = bp::extract(py_tell()); - | ^ -[ 81%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SmilesWriter.cpp -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 404 | result = off_type(bp::extract(py_tell())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7626,15 +7759,13 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/TDTMolSupplier.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SmilesWriter.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 81%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SDWriter.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7649,7 +7780,7 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SmilesMolSupplier.cpp:13: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SDWriter.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -7670,13 +7801,15 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SmilesWriter.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/TDTWriter.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 80%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/RGroupDecompParams.cpp In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SmilesWriter.cpp:20: /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] @@ -7688,11 +7821,28 @@ /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] 308 | if (df_isTextMode && c > STD_ASCII && | ~~^~~~~~~~~~~ -[ 81%] Linking CXX executable testCoulombMat -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoulombMat.dir/link.txt --verbose=1 -[ 81%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/TDTWriter.cpp -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o -o testCoulombMat ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/TDTWriter.cpp:21: +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 285 | if (df_isTextMode && c > STD_ASCII) { + | ~~^~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 297 | if ((!df_isTextMode || c <= STD_ASCII) && + | ~~^~~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 308 | if (df_isTextMode && c > STD_ASCII && + | ~~^~~~~~~~~~~ +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SDWriter.cpp:21: +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 285 | if (df_isTextMode && c > STD_ASCII) { + | ~~^~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 297 | if ((!df_isTextMode || c <= STD_ASCII) && + | ~~^~~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 308 | if (df_isTextMode && c > STD_ASCII && + | ~~^~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7707,29 +7857,28 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SDWriter.cpp:13: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/PDBWriter.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 80%] Linking CXX executable testFMCS +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFMCS.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o -o testFMCS ../../../lib/libRDKitFMCS.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 81%] Built target testCoulombMat -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend.internal". -Scanning dependencies of target testAUTOCORR3D +[ 80%] Built target testFMCS +[ 80%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRGroupDecomposition_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/RGroupScore.cpp +[ 80%] Linking CXX executable FMCStest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/FMCStest.dir/testFMCS.cpp.o -o FMCStest ../../../../lib/libRDKitFMCS.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 81%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/testAUTOCORR3D.cpp -[ 81%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MDLParser.cpp.o -cd 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-fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/MDLParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/MDLParser.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/SDWriter.cpp:21: +[ 80%] Built target FMCStest +[ 80%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/PDBWriter.cpp:20: /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] 285 | if (df_isTextMode && c > STD_ASCII) { @@ -7740,8 +7889,8 @@ /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] 308 | if (df_isTextMode && c > STD_ASCII && | ~~^~~~~~~~~~~ -[ 82%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/PDBWriter.cpp +[ 80%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] 186 | off_type py_pos = bp::extract(py_tell()); @@ -7749,22 +7898,28 @@ /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] 156 | off_type py_pos = bp::extract(py_tell()); | ^ -[ 82%] Linking CXX executable testAbbreviations -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAbbreviations.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testAbbreviations.dir/__/catch_main.cpp.o CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o -o testAbbreviations ../../../lib/libRDKitAbbreviations.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 82%] Built target testAbbreviations -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend.internal". -Scanning dependencies of target testDescriptors -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 82%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/test.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testDescriptors.dir/test.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/test.cpp +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 186 | off_type py_pos = bp::extract(py_tell()); + | ^ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 156 | off_type py_pos = bp::extract(py_tell()); + | ^ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 186 | off_type py_pos = bp::extract(py_tell()); + | ^ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 156 | off_type py_pos = bp::extract(py_tell()); + | ^ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 404 | result = off_type(bp::extract(py_tell())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 404 | result = off_type(bp::extract(py_tell())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] 404 | result = off_type(bp::extract(py_tell())); @@ -7776,8 +7931,10 @@ /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] 156 | off_type py_pos = bp::extract(py_tell()); | ^ -[ 82%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 404 | result = off_type(bp::extract(py_tell())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7792,30 +7949,13 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/TDTWriter.cpp:13: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 404 | result = off_type(bp::extract(py_tell())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 82%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolfiles_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/TDTWriter.cpp:21: -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 285 | if (df_isTextMode && c > STD_ASCII) { - | ~~^~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 297 | if ((!df_isTextMode || c <= STD_ASCII) && - | ~~^~~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 308 | if (df_isTextMode && c > STD_ASCII && - | ~~^~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7830,30 +7970,15 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/PDBWriter.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 82%] Linking CXX executable testAUTOCORR3D -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAUTOCORR3D.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o -o testAUTOCORR3D ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 82%] Built target testAUTOCORR3D -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend.internal". -Scanning dependencies of target testAUTOCORR2D -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 82%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/testAUTOCORR2D.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/PDBWriter.cpp:20: +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedMolSupplier.h:15, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp:23: /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] 285 | if (df_isTextMode && c > STD_ASCII) { @@ -7864,55 +7989,8 @@ /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] 308 | if (df_isTextMode && c > STD_ASCII && | ~~^~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 186 | off_type py_pos = bp::extract(py_tell()); - | ^ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 156 | off_type py_pos = bp::extract(py_tell()); - | ^ -[ 82%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/DaylightParser.cpp -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 404 | result = off_type(bp::extract(py_tell())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp:13: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 82%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionPickler.cpp -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 186 | off_type py_pos = bp::extract(py_tell()); - | ^ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 156 | off_type py_pos = bp::extract(py_tell()); - | ^ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 404 | result = off_type(bp::extract(py_tell())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedMolSupplier.h:15, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp:23: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp:23: /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] 285 | if (df_isTextMode && c > STD_ASCII) { @@ -7923,8 +8001,44 @@ /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] 308 | if (df_isTextMode && c > STD_ASCII && | ~~^~~~~~~~~~~ -[ 82%] Linking CXX executable testMMFFForceField -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceField.dir/link.txt --verbose=1 +[ 81%] Linking CXX shared library ../../../lib/libRDKitRGroupDecomposition.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitRGroupDecomposition.so.1 -o ../../../lib/libRDKitRGroupDecomposition.so.1.2020.09.4 CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o ../../../lib/libRDKitFMCS.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitRGroupDecomposition.so.1.2020.09.4 ../../../lib/libRDKitRGroupDecomposition.so.1 ../../../lib/libRDKitRGroupDecomposition.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 81%] Built target RGroupDecomposition +make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend.internal". +Scanning dependencies of target testRGroupDecomp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +Scanning dependencies of target rdRGroupDecomposition +[ 81%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 81%] Building CXX object Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdRGroupDecomposition_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp +[ 81%] Linking CXX shared module ../../../../rdkit/Chem/rdFMCS.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdFMCS.so CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o ../../../../lib/libRDKitFMCS.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 81%] Built target rdFMCS +[ 81%] Linking CXX shared module ../../../rdkit/Chem/rdmolfiles.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdmolfiles.so CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/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/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so -lpthread +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 81%] Built target rdmolfiles In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -7939,40 +8053,14 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp:13: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp:32: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMMFFForceField.dir/testMMFFForceField.cpp.o -o testMMFFForceField ../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 82%] Built target testMMFFForceField -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/DependInfo.cmake --color= -Dependee 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-fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testRDFcustom.dir/testRDFcustom.cpp.o -c /build/reproducible-path/rdkit-202009.4/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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/DependInfo.cmake --color= -Dependee 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Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/testRDF.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testRDF.dir/testRDF.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/testRDF.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedMolSupplier.h:15, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp:23: +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp:47: /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] 285 | if (df_isTextMode && c > STD_ASCII) { @@ -7983,90 +8071,149 @@ /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] 308 | if (df_isTextMode && c > STD_ASCII && | ~~^~~~~~~~~~~ -[ 83%] Linking CXX executable testAUTOCORR2D -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAUTOCORR2D.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -o testAUTOCORR2D ../../../lib/libRDKitDescriptors.so.1.2020.09.4 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../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 81%] Linking CXX shared library ../../../lib/libRDKitDescriptors.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDescriptors.so.1 -o ../../../lib/libRDKitDescriptors.so.1.2020.09.4 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/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.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 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make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 83%] Built target testAUTOCORR2D +[ 81%] Built target Descriptors +make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/depend make -f Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/depend +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors 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Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/depend.internal". -Scanning dependencies of target testATF -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 83%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/testATF.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK 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Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/depend.internal". -Scanning dependencies of target test3D -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make 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-DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/test3D.dir/test3D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/test3D.cpp -[ 83%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionWriter.cpp -[ 83%] Linking CXX shared module ../../../rdkit/Chem/rdmolfiles.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdmolfiles.so CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o CMakeFiles/rdmolfiles.dir/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/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so -lpthread -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 83%] Built target rdmolfiles -make -f Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/DependInfo.cmake" is newer than depender 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/depend.internal". 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dependencies of target test3D +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-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 84%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/testPBF.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 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../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -[ 84%] Linking CXX executable testMORSE -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMORSE.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMORSE.dir/testMORSE.cpp.o -o testMORSE ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so 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depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/depend.internal". -Scanning dependencies of target testMMFFForceFieldHelpers -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 84%] Building CXX object 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../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 85%] Built target testDescriptors -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF 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/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF/testUFFHelpers.cpp -[ 85%] Linking CXX executable testGETAWAY -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGETAWAY.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now 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../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 85%] Built target testGETAWAY -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF 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/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF/testCrystalFF.cpp -[ 85%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionRunner.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:10: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 85%] Linking CXX executable testWHIM -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testWHIM.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testWHIM.dir/testWHIM.cpp.o -o testWHIM ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 85%] Built target testWHIM -make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/depend.internal". -Scanning dependencies of target testDistGeomHelpers -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 85%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp -[ 85%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/PreprocessRxn.cpp -[ 85%] Linking CXX executable testMMFFForceFieldHelpersMultiThread -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now 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../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 85%] Built target testMMFFForceFieldHelpersMultiThread -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 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-Scanning dependencies of target rdDistGeom -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 85%] Building CXX object Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap && /usr/bin/c++ -DBOOST_PYTHON_MAX_ARITY=32 -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdDistGeom_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp -[ 85%] Linking CXX executable testCrystalForceField -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o -o testCrystalForceField ../../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 85%] Built target testCrystalForceField +[ 83%] Built target rdRGroupDecomposition 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/DependInfo.cmake --color= @@ -8267,58 +8287,32 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 85%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o +[ 83%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/testO3AAlign.cpp -[ 85%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/SanitizeRxn.cpp -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function 'boost::python::list {anonymous}::GetUSRFromDistributions(boost::python::api::object)': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:659:18: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 659 | tmpDist[j] = python::extract(distances[i][j]); -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Conformer.h:14, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ROMol.h:36, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/GraphMol.h:19, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:12: -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h: In function 'boost::python::list {anonymous}::GetUSRDistributionsFromPoints(boost::python::api::object, boost::python::api::object)': -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 87 | x = other.x; - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:88:15: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] - 88 | y = other.y; - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:89:15: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] - 89 | z = other.z; - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h: In function 'boost::python::list {anonymous}::GetUSRDistributions(boost::python::api::object, boost::python::api::object)': -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 87 | x = other.x; - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:88:15: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] - 88 | y = other.y; - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:89:15: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] - 89 | z = other.z; - | ~~~~~~^ -[ 86%] Linking CXX executable testMMFFForceFieldHelpers -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o -o testMMFFForceFieldHelpers ../../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so +[ 83%] Linking CXX executable testAUTOCORR3D +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAUTOCORR3D.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o -o testAUTOCORR3D ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 83%] Linking CXX executable testRDF +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRDF.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testRDF.dir/testRDF.cpp.o -o testRDF ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 86%] Built target testMMFFForceFieldHelpers +[ 83%] Built target testAUTOCORR3D 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/DependInfo.cmake --color= Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/depend.internal". +[ 84%] Linking CXX executable testAUTOCORR2D +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAUTOCORR2D.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testAUTOCORR2D.dir/testAUTOCORR2D.cpp.o -o testAUTOCORR2D ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl Scanning dependencies of target testMolAlign make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 86%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/testMolAlign.cpp -[ 86%] Linking CXX executable testUFFForceFieldHelpers -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -o testUFFForceFieldHelpers ../../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 86%] Built target testUFFForceFieldHelpers +[ 84%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/testMolAlign.cpp +[ 84%] Built target testRDF 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake --color= @@ -8328,10 +8322,58 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 86%] Building CXX object Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o +[ 84%] Building CXX object Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolAlign_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp -[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PNGParser.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/PNGParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/PNGParser.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 84%] Built target testAUTOCORR2D +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 84%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/hashfunctions.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolHash.dir/hashfunctions.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash/hashfunctions.cpp +[ 84%] Linking CXX executable testCoulombMat +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoulombMat.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function 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-DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/DaylightParser.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 84%] Built target testPBF +[ 84%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionPickler.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionPickler.cpp +[ 84%] Linking CXX executable testEEM +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testEEM.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testEEM.dir/testEEM.cpp.o -o testEEM 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../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 84%] Built target testEEM +[ 84%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionWriter.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionWriter.cpp +[ 84%] Linking CXX executable testRDFcustom +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRDFcustom.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testRDFcustom.dir/testRDFcustom.cpp.o -o testRDFcustom ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 84%] Built target testRDFcustom +[ 85%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/normalize.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolHash.dir/normalize.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash/normalize.cpp +[ 85%] Linking CXX executable test3D +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/test3D.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/test3D.dir/test3D.cpp.o -o test3D ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 85%] Built target test3D +[ 85%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionDepict.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionDepict.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionDepict.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8345,14 +8387,17 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:10: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 85%] Linking CXX executable testMORSE +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMORSE.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMORSE.dir/testMORSE.cpp.o -o testMORSE ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8374,26 +8419,20 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/Enumerate.cpp -[ 86%] Linking CXX executable testO3AAlign -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/testO3AAlign.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o -o testO3AAlign ../../../lib/libRDKitO3AAlign.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 86%] Built target testO3AAlign -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend.internal". -Scanning dependencies of target molHashCatchTest +[ 85%] Built target testMORSE +[ 85%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp +[ 85%] Linking CXX executable testGETAWAY +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testGETAWAY.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o -o testGETAWAY ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 86%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash/catch_tests.cpp -[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionUtils.cpp +[ 85%] Linking CXX executable testWHIM +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testWHIM.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testWHIM.dir/testWHIM.cpp.o -o testWHIM ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp: In function 'RDKit::MolAlign::PyO3A* RDKit::MolAlign::getCrippenO3A(RDKit::ROMol&, RDKit::ROMol&, boost::python::list, boost::python::list, int, int, bool, unsigned int, unsigned int, boost::python::list, boost::python::list)': /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:478:40: warning: comparison of integer expressions of different signedness: 'boost::python::ssize_t' {aka 'int'} and 'unsigned int' [-Wsign-compare] 478 | (python::len(prbCrippenContribs) == prbNAtoms)) { @@ -8408,9 +8447,40 @@ /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:574:40: warning: comparison of integer expressions of different signedness: 'boost::python::ssize_t' {aka 'int'} and 'unsigned int' [-Wsign-compare] 574 | (python::len(refCrippenContribs) == refNAtoms)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 85%] Built target testWHIM +[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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-I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionRunner.cpp +[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/SanitizeRxn.cpp +[ 86%] Linking CXX shared library ../../../lib/libRDKitMolHash.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolHash.so.1 -o ../../../lib/libRDKitMolHash.so.1.2020.09.4 CMakeFiles/MolHash.dir/hashfunctions.cpp.o CMakeFiles/MolHash.dir/normalize.cpp.o ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PNGParser.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/PNGParser.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/PNGParser.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolHash.so.1.2020.09.4 ../../../lib/libRDKitMolHash.so.1 ../../../lib/libRDKitMolHash.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 86%] Built target MolHash +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend.internal". +Scanning dependencies of target molHashCatchTest +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 86%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash/catch_tests.cpp [ 86%] Linking CXX executable testMolAlign cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolAlign.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o -o testMolAlign ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/Enumerate.cpp make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 86%] Built target testMolAlign make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend @@ -8424,22 +8494,15 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 86%] Building CXX object Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolHash_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash/Wrap/rdMolHash.cpp -[ 86%] Linking CXX shared module ../../../../rdkit/Chem/rdDistGeom.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDistGeom.so CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o ../../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 86%] Built target rdDistGeom -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend.internal". -Scanning dependencies of target testRGroupDecomp +[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.cpp +[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.cpp +[ 86%] Linking CXX executable testO3AAlign +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/testO3AAlign.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o -o testO3AAlign ../../../lib/libRDKitO3AAlign.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 86%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp +[ 86%] Built target testO3AAlign In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8461,66 +8524,48 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 86%] Linking CXX executable testDistGeomHelpers -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeomHelpers.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o -o testDistGeomHelpers ../../../lib/libRDKitDistGeomHelpers.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDistGeometry.so.1.2020.09.4 ../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 86%] Built target testDistGeomHelpers -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend.internal". -Scanning dependencies of target rdRGroupDecomposition -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 86%] Building CXX object Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdRGroupDecomposition_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp -[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.cpp +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp: In function 'boost::python::list {anonymous}::GetUSRFromDistributions(boost::python::api::object)': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:659:18: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 659 | tmpDist[j] = python::extract(distances[i][j]); In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:24: /build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h: In member function 'T PySequenceHolder::operator[](unsigned int) const [with T = double]': /build/reproducible-path/rdkit-202009.4/Code/RDBoost/PySequenceHolder.h:68:9: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] 68 | T res = python::extract(d_seq[which]); | ^~~ +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Conformer.h:14, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ROMol.h:36, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/GraphMol.h:19, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:12: +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h: In function 'boost::python::list {anonymous}::GetUSRDistributionsFromPoints(boost::python::api::object, boost::python::api::object)': +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 87 | x = other.x; + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:88:15: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] + 88 | y = other.y; + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:89:15: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] + 89 | z = other.z; + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h: In function 'boost::python::list {anonymous}::GetUSRDistributions(boost::python::api::object, boost::python::api::object)': +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+12).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 87 | x = other.x; + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:88:15: warning: '*((void*)(&)+12).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] + 88 | y = other.y; + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:89:15: warning: '*((void*)(&)+12).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] + 89 | z = other.z; + | ~~~~~~^ [ 86%] Linking CXX shared module ../../../../rdkit/Chem/rdMolHash.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolHash.so CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o ../../../../lib/libRDKitMolHash.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 86%] Built target rdMolHash -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/args.hpp:22, - from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp:32: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp:47: -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 285 | if (df_isTextMode && c > STD_ASCII) { - | ~~^~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 297 | if ((!df_isTextMode || c <= STD_ASCII) && - | ~~^~~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 308 | if (df_isTextMode && c > STD_ASCII && - | ~~^~~~~~~~~~~ +[ 86%] Linking CXX executable testDescriptors +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDescriptors.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testDescriptors.dir/test.cpp.o -o testDescriptors ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 86%] Built target testDescriptors [ 86%] Linking CXX shared module ../../../../rdkit/Chem/rdMolAlign.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolAlign.so CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o ../../../../lib/libRDKitO3AAlign.so.1.2020.09.4 ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitForceFieldHelpers.so.1.2020.09.4 ../../../../lib/libRDKitForceField.so.1.2020.09.4 ../../../../lib/libRDKitOptimizer.so.1.2020.09.4 ../../../../lib/libRDKitTrajectory.so.1.2020.09.4 ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl @@ -8536,78 +8581,109 @@ make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend +make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend.internal". +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E 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Scanning dependencies of target testReactionFingerprints Scanning dependencies of target testEnumeration +Scanning dependencies of target Deprotect +Scanning dependencies of target rxnTestCatch +Scanning dependencies of target MolEnumerator +Scanning dependencies of target testReaction +Scanning dependencies of target rdChemReactions +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -Scanning dependencies of target testReaction make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build -Scanning dependencies of target rxnTestCatch -make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build +make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build +make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make 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/build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/testEnumerate.cpp +[ 87%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o +[ 88%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator/LinkNode.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdChemReactions_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp +[ 88%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolEnumerator_EXPORTS 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/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator/PositionVariation.cpp Scanning dependencies of target MolStandardize make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 87%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o +[ 88%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o +[ 88%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Metal.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/MolStandardize.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Metal.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Metal.cpp +Scanning dependencies of target MolDraw2D +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 88%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2D.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8628,94 +8704,11 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 87%] Linking CXX executable testReactionFingerprints -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReactionFingerprints.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -o testReactionFingerprints ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 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../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libboost_serialization.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 87%] Built target testReactionFingerprints -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend.internal". -Scanning dependencies of target MolDraw2D -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 87%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2D.cpp -[ 87%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Metal.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Metal.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Metal.cpp -[ 87%] Linking CXX executable testEnumeration -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testEnumeration.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -o testEnumeration ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libboost_serialization.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 87%] Built target testEnumeration -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake 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dependencies of target Deprotect -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 87%] Building CXX object Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/Deprotect.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDeprotect_EXPORTS -DRDKIT_DEPROTECT_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 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-Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolDescriptors.so CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 87%] Built target rdMolDescriptors -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/depend.internal". -Scanning dependencies of target MolEnumerator -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 87%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator/MolEnumerator.cpp -[ 87%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Normalize.cpp.o +[ 88%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Normalize.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Normalize.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Normalize.cpp -[ 88%] Linking CXX shared library ../../../lib/libRDKitDeprotect.so +[ 89%] Linking CXX shared library ../../../lib/libRDKitDeprotect.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitDeprotect.so.1 -o ../../../lib/libRDKitDeprotect.so.1.2020.09.4 CMakeFiles/Deprotect.dir/Deprotect.cpp.o ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libboost_serialization.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitDeprotect.so.1.2020.09.4 ../../../lib/libRDKitDeprotect.so.1 ../../../lib/libRDKitDeprotect.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 88%] Built target Deprotect -[ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Validate.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Validate.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Validate.cpp -[ 89%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator/PositionVariation.cpp -[ 89%] Linking CXX executable molHashCatchTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script CMakeFiles/molHashCatchTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -o molHashCatchTest ../../../lib/libRDKitMolHash.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 89%] Built target molHashCatchTest -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect 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-o CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp -[ 90%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Tautomer.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 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/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. 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/usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Charge.cpp.o -c 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Tautomer.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Tautomer.cpp +[ 90%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Fragment.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/Fragment.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Fragment.cpp -[ 91%] Linking CXX shared library ../../../lib/libRDKitMolEnumerator.so +[ 90%] Linking CXX executable testReactionFingerprints +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReactionFingerprints.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 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../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libboost_serialization.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 90%] Built target testReactionFingerprints +make -f Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build.make 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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp -[ 91%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.cpp -[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.cpp -[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.cpp -[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.cpp -[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DUtils.cpp -[ 92%] Building CXX object 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-D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/smart_ptr.hpp:19, - from /build/reproducible-path/rdkit-202009.4/Code/Numerics/Vector.h:23, - from /build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:24, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2D.h:28, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DUtils.cpp:10: -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ -[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.cpp -[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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-I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMolEnumerator.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator/catch_main.cpp +[ 90%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogUtils.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8823,34 +8815,16 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 92%] Building CXX object Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o +[ 90%] Building CXX object Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DEPROTECT_BUILD -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdDeprotect_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap/DeprotectWrap.cpp -[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawText.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/DrawText.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawText.cpp -[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS 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/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawTextSVG.cpp -[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DJS.cpp -[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawTextJS.cpp -[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend.internal". -Scanning dependencies of target testMolEnumerator -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 92%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/catch_main.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION 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-DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogEntry.cpp +[ 91%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DSVG.cpp +[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogParams.cpp +[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/AcidBaseCatalog/AcidBaseCatalogUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8872,65 +8846,97 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 93%] Linking CXX shared library ../../../lib/libRDKitMolStandardize.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolStandardize.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolStandardize.so.1 -o ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 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.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_serialization.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitMolStandardize.so.1 ../../../lib/libRDKitMolStandardize.so +[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD 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/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.cpp +[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o +[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogUtils.cpp +[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogEntry.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.cpp +[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp +[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.cpp +[ 92%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.cpp +[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DUtils.cpp +[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawText.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/DrawText.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawText.cpp +[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawTextSVG.cpp +[ 92%] Linking CXX shared module ../../../../rdkit/Chem/rdDeprotect.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDeprotect.so 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/usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 92%] Built target rdDeprotect make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/depend -[ 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Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/depend.internal". Scanning dependencies of target rdMolEnumerator make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 94%] Building CXX object Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o +[ 92%] Building CXX object Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolEnumerator_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator/Wrap/rdMolEnumerator.cpp -[ 94%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o +[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DJS.cpp +[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawTextJS.cpp +[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawTextFT.cpp +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/smart_ptr.hpp:19, + from /build/reproducible-path/rdkit-202009.4/Code/Numerics/Vector.h:23, + from /build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:24, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2D.h:28, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DUtils.cpp:10: +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +[ 93%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawTextFTSVG.cpp +[ 93%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawTextFTJS.cpp +[ 93%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator/enumerator_catch.cpp +[ 94%] Linking CXX shared library ../../../lib/libRDKitMolStandardize.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolStandardize.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolStandardize.so.1 -o ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 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.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_serialization.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitMolStandardize.so.1 ../../../lib/libRDKitMolStandardize.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 94%] Built target MolStandardize 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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend.internal". -Scanning dependencies of target TautomerQuery make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 94%] Building CXX object Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake --color= Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend.internal". Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend.internal". -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_TAUTOMERQUERY_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DTautomerQuery_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery/TautomerQuery.cpp Scanning dependencies of target molStandardizeTest +Scanning dependencies of target TautomerQuery make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 95%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/test1.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/molStandardizeTest.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/test1.cpp -[ 95%] Linking CXX executable deprotectTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/cmake -E cmake_link_script CMakeFiles/deprotectTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o -o deprotectTest ../../../lib/libRDKitDeprotect.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 95%] Built target deprotectTest -make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend.internal". -Scanning dependencies of target molStandardizeSmallTest -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 95%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/test2.cpp +[ 95%] Building CXX object Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o +[ 95%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/test1.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/molStandardizeTest.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/test1.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery && 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/build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery/TautomerQuery.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -8952,12 +8958,20 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 95%] Linking CXX shared library ../../../lib/libRDKitMolDraw2D.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolDraw2D.so.1 -o ../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 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/DrawText.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o ../../../lib/libRDKitChemReactions.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libfreetype.so ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so 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"/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend.internal". +Scanning dependencies of target molStandardizeSmallTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 95%] Built target MolDraw2D +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-202009.4/obj-i686-linux-gnu' +[ 95%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o +cd 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake --color= @@ -8969,11 +8983,8 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 95%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/testValidate.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 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/usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libboost_serialization.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 95%] Built target testReaction +[ 95%] Built target rdChemReactions 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/DependInfo.cmake --color= @@ -8985,11 +8996,6 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 95%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT 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/build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdDeprotect.so CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o ../../../../lib/libRDKitDeprotect.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so 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../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 95%] Built target rdDeprotect 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/DependInfo.cmake --color= @@ -9001,11 +9007,12 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 95%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/testCharge.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/molChargeTest.dir/testCharge.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/testCharge.cpp -[ 95%] Linking CXX shared module ../../../../rdkit/Chem/rdMolEnumerator.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolEnumerator.so CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o ../../../../lib/libRDKitMolEnumerator.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 95%] Linking CXX shared library ../../../lib/libRDKitMolDraw2D.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitMolDraw2D.so.1 -o ../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 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/DrawText.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextSVG.cpp.o CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o ../../../lib/libRDKitChemReactions.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libfreetype.so ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libboost_serialization.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 ../../../lib/libRDKitMolDraw2D.so.1 ../../../lib/libRDKitMolDraw2D.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 95%] Built target rdMolEnumerator +[ 95%] Built target MolDraw2D 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/DependInfo.cmake --color= @@ -9017,44 +9024,43 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 95%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/testTautomer.cpp -[ 95%] Linking CXX executable molStandardizeSmallTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeSmallTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -o molStandardizeSmallTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -[ 95%] Linking CXX shared library ../../../lib/libRDKitTautomerQuery.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitTautomerQuery.so.1 -o ../../../lib/libRDKitTautomerQuery.so.1.2020.09.4 CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitTautomerQuery.so.1.2020.09.4 ../../../lib/libRDKitTautomerQuery.so.1 ../../../lib/libRDKitTautomerQuery.so +[ 95%] Linking CXX shared module ../../../../rdkit/Chem/rdMolEnumerator.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolEnumerator.so CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o ../../../../lib/libRDKitMolEnumerator.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 95%] Built target molStandardizeSmallTest +[ 95%] Built target rdMolEnumerator 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize 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Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend.internal". -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake --color= Scanning dependencies of target molFragmentTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend.internal". [ 95%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/testFragment.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/testFragment.cpp +[ 95%] Linking CXX executable molStandardizeSmallTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeSmallTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o -o molStandardizeSmallTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 95%] Built target molStandardizeSmallTest +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend.internal". Scanning dependencies of target molStandardizeCatchTest make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' [ 95%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/catch_tests.cpp -[ 95%] Linking CXX executable molStandardizeTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molStandardizeTest.dir/test1.cpp.o -o molStandardizeTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so 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-fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdMolDescriptors.so CMakeFiles/rdMolDescriptors.dir/rdMolDescriptors.cpp.o ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 95%] Built target molStandardizeTest +[ 95%] Built target rdMolDescriptors 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/DependInfo.cmake --color= @@ -9069,15 +9075,10 @@ [ 95%] Linking CXX executable molValidateTest cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molValidateTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molValidateTest.dir/testValidate.cpp.o -o molValidateTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 95%] Built target molValidateTest [ 96%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Validate.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Validate.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Validate.cpp -[ 96%] Linking CXX executable molNormalizeTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molNormalizeTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o -o molNormalizeTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 96%] Built target molNormalizeTest +[ 96%] Built target molValidateTest 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/DependInfo.cmake --color= @@ -9089,22 +9090,71 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 97%] Building CXX object Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SCAFFOLDNETWORK_BUILD -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DScaffoldNetwork_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/ScaffoldNetwork.cpp -[ 97%] Linking CXX executable molChargeTest +[ 97%] Linking CXX executable molNormalizeTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molNormalizeTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o -o molNormalizeTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 97%] Built target molNormalizeTest +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend.internal". +Scanning dependencies of target moldraw2DRxnTest1 +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 97%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/rxn_test1.cpp +[ 97%] Linking CXX shared library ../../../lib/libRDKitTautomerQuery.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitTautomerQuery.so.1 -o ../../../lib/libRDKitTautomerQuery.so.1.2020.09.4 CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 97%] Linking CXX executable molStandardizeTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeTest.dir/link.txt --verbose=1 +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitTautomerQuery.so.1.2020.09.4 ../../../lib/libRDKitTautomerQuery.so.1 ../../../lib/libRDKitTautomerQuery.so +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molStandardizeTest.dir/test1.cpp.o -o molStandardizeTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 97%] Built target TautomerQuery +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend.internal". +Scanning dependencies of target moldraw2DTestCatch +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 97%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/catch_main.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/moldraw2DTestCatch.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/catch_main.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 97%] Built target molStandardizeTest +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/depend.internal". +Scanning dependencies of target moldraw2DTest1 +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 98%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/test1.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/test1.cpp +[ 98%] Linking CXX executable molChargeTest cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molChargeTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molChargeTest.dir/testCharge.cpp.o -o molChargeTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 97%] Built target molChargeTest -make -f Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/depend +[ 98%] Built target molChargeTest +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/depend.internal". -Scanning dependencies of target tautomerQueryTestCatch +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend.internal". +Scanning dependencies of target rdMolDraw2D make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build +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-202009.4/obj-i686-linux-gnu' -[ 97%] Building CXX object Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery/catch_tests.cpp +[ 98%] Building CXX object Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolDraw2D_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9126,22 +9176,9 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 97%] Linking CXX executable molFragmentTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molFragmentTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -o molFragmentTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 97%] Built target molFragmentTest -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/depend.internal". -Scanning dependencies of target rdTautomerQuery -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 97%] Building CXX object Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdTautomerQuery_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery/Wrap/rdTautomerQuery.cpp +[ 98%] Linking CXX executable molHashCatchTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script CMakeFiles/molHashCatchTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -o molHashCatchTest ../../../lib/libRDKitMolHash.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9163,8 +9200,26 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 97%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Charge.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Charge.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Charge.cpp +[ 98%] Linking CXX executable molFragmentTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molFragmentTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molFragmentTest.dir/testFragment.cpp.o -o molFragmentTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 98%] Built target molHashCatchTest +[ 98%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/catch_tests.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 98%] Built target molFragmentTest +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend.internal". +Scanning dependencies of target rdmolops +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 98%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/rdmolops.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolops.dir/rdmolops.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdmolops.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9178,22 +9233,65 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery/Wrap/rdTautomerQuery.cpp:13: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 97%] Linking CXX shared library ../../../lib/libRDKitScaffoldNetwork.so +[ 98%] Linking CXX executable moldraw2DRxnTest1 +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DRxnTest1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -o moldraw2DRxnTest1 ../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libfreetype.so +[ 98%] Linking CXX executable testMolEnumerator +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolEnumerator.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolEnumerator.dir/catch_main.cpp.o CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o -o testMolEnumerator ../../../lib/libRDKitMolEnumerator.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 98%] Built target moldraw2DRxnTest1 +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/depend.internal". +Scanning dependencies of target tautomerQueryTestCatch +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 98%] Building CXX object Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery/catch_tests.cpp +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 98%] Built target testMolEnumerator +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/depend.internal". +Scanning dependencies of target rdTautomerQuery +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 98%] Building CXX object Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdTautomerQuery_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery/Wrap/rdTautomerQuery.cpp +[ 98%] Linking CXX shared library ../../../lib/libRDKitScaffoldNetwork.so cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libRDKitScaffoldNetwork.so.1 -o ../../../lib/libRDKitScaffoldNetwork.so.1.2020.09.4 CMakeFiles/ScaffoldNetwork.dir/ScaffoldNetwork.cpp.o ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitScaffoldNetwork.so.1.2020.09.4 ../../../lib/libRDKitScaffoldNetwork.so.1 ../../../lib/libRDKitScaffoldNetwork.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 97%] Built target ScaffoldNetwork -[ 97%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Fragment.cpp +[ 98%] Built target ScaffoldNetwork +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/depend.internal". +Scanning dependencies of target testScaffoldNetwork +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +[ 98%] Building CXX object Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/catch_main.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testScaffoldNetwork.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/catch_main.cpp +[ 98%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Charge.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Charge.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Charge.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9207,16 +9305,14 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Charge.cpp:10: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdmolops.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 97%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Normalize.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9231,32 +9327,26 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Fragment.cpp:10: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery/Wrap/rdTautomerQuery.cpp:13: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 97%] Linking CXX shared module ../../../../rdkit/Chem/rdTautomerQuery.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdTautomerQuery.so CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o ../../../../lib/libRDKitTautomerQuery.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 97%] Built target rdTautomerQuery -make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend +[ 98%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/MolOps.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolops.dir/MolOps.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MolOps.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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend.internal". -Scanning dependencies of target moldraw2DRxnTest1 +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake --color= +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend.internal". +Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend.internal". +Scanning dependencies of target rdScaffoldNetwork make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build +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-202009.4/obj-i686-linux-gnu' -[ 97%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/rxn_test1.cpp -[ 97%] Linking CXX executable molTautomerTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molTautomerTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o -o molTautomerTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 98%] Building CXX object Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdScaffoldNetwork_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap/rdScaffoldNetwork.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9271,54 +9361,13 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Normalize.cpp:10: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Charge.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 97%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Metal.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Metal.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Metal.cpp -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 97%] Built target molTautomerTest -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake --color= -[ 97%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend.internal". -Scanning dependencies of target moldraw2DTestCatch -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 97%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/catch_main.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/moldraw2DTestCatch.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/catch_main.cpp -[ 97%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/catch_tests.cpp -In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, - from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, - from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, - from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, - from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - 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-202009.4/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp:11: -/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' - 13 | BOOST_HEADER_DEPRECATED("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9332,43 +9381,17 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Metal.cpp:10: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap/rdScaffoldNetwork.cpp:11: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 97%] Linking CXX executable moldraw2DRxnTest1 -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DRxnTest1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o -o moldraw2DRxnTest1 ../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libfreetype.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 97%] Built target moldraw2DRxnTest1 -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/depend.internal". -Scanning dependencies of target moldraw2DTest1 -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 98%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/test1.cpp -[ 98%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator/enumerator_catch.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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend.internal". -Scanning dependencies of target rdMolDraw2D -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 98%] Building CXX object Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolDraw2D_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp +[ 98%] Linking CXX executable deprotectTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/cmake -E cmake_link_script CMakeFiles/deprotectTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o -o deprotectTest ../../../lib/libRDKitDeprotect.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9383,45 +9406,63 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MolOps.cpp:12: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 98%] Linking CXX executable testMolEnumerator -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolEnumerator.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testMolEnumerator.dir/catch_main.cpp.o CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o -o testMolEnumerator ../../../lib/libRDKitMolEnumerator.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 98%] Built target testMolEnumerator -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend.internal". -Scanning dependencies of target rdmolops -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 98%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/rdmolops.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolops.dir/rdmolops.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdmolops.cpp -[ 98%] Linking CXX shared module ../../../../rdkit/Chem/MolStandardize/rdMolStandardize.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -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 ../../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 98%] Built target deprotectTest +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Conformer.h:14, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ROMol.h:36, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:17: +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h: In function 'std::unique_ptr > pythonObjectToVect(const boost::python::api::object&) [with T = RDGeom::Point2D]': +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:269:57: warning: '*((void*)(&)+12).RDGeom::Point2D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 269 | Point2D(const Point2D &other) : Point(other), x(other.x), y(other.y) {} + | ~~~~~~^ +/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:269:69: warning: '*((void*)(&)+12).RDGeom::Point2D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] + 269 | Point2D(const Point2D &other) : Point(other), x(other.x), y(other.y) {} + | ~~~~~~^ +[ 98%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/ChiralityOps.cpp +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:14: +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h: In function 'std::unique_ptr > pythonObjectToVect(const boost::python::api::object&) [with T = double]': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:120:9: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 120 | T v = python::extract(obj[i]); + | ^ +In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MolOps.cpp:30: +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 285 | if (df_isTextMode && c > STD_ASCII) { + | ~~^~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 297 | if ((!df_isTextMode || c <= STD_ASCII) && + | ~~^~~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] + 308 | if (df_isTextMode && c > STD_ASCII && + | ~~^~~~~~~~~~~ +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp: In function 'void RDKit::{anonymous}::pyDictToDoubleMap(boost::python::api::object, std::map&)': +/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:76:57: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] + 76 | double r = python::extract(tDict.values()[i]); + | ^ +[ 98%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o +[ 98%] Linking CXX executable molTautomerTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Fragment.cpp +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molTautomerTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o -o molTautomerTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 98%] Built target rdMolStandardize -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/depend.internal". -Scanning dependencies of target testScaffoldNetwork +[ 98%] Built target molTautomerTest +[ 98%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Normalize.cpp +[ 98%] Linking CXX shared module ../../../../rdkit/Chem/rdTautomerQuery.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/rdTautomerQuery.so CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o ../../../../lib/libRDKitTautomerQuery.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 98%] Building CXX object Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/catch_main.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testScaffoldNetwork.dir/catch_main.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/catch_main.cpp +[ 98%] Built target rdTautomerQuery +[ 98%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Metal.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Metal.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Metal.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9436,36 +9477,13 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/rdmolops.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/ChiralityOps.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 98%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/MolOps.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolops.dir/MolOps.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MolOps.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Conformer.h:14, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ROMol.h:36, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:17: -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h: In function 'std::unique_ptr > pythonObjectToVect(const boost::python::api::object&) [with T = RDGeom::Point2D]': -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:269:57: warning: '*((void*)(&)+12).RDGeom::Point2D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 269 | Point2D(const Point2D &other) : Point(other), x(other.x), y(other.y) {} - | ~~~~~~^ -/build/reproducible-path/rdkit-202009.4/Code/Geometry/point.h:269:69: warning: '*((void*)(&)+12).RDGeom::Point2D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] - 269 | Point2D(const Point2D &other) : Point(other), x(other.x), y(other.y) {} - | ~~~~~~^ -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:14: -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h: In function 'std::unique_ptr > pythonObjectToVect(const boost::python::api::object&) [with T = double]': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:120:9: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 120 | T v = python::extract(obj[i]); - | ^ -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp: In function 'void RDKit::{anonymous}::pyDictToDoubleMap(boost::python::api::object, std::map&)': -/build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:76:57: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] - 76 | double r = python::extract(tDict.values()[i]); - | ^ -[ 98%] Building CXX object Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/catch_tests.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9479,53 +9497,14 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MolOps.cpp:12: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Fragment.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 98%] Linking CXX executable moldraw2DTest1 -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTest1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -o moldraw2DTest1 ../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libfreetype.so -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 98%] Built target moldraw2DTest1 -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake --color= -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend.internal". -Dependee "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend.internal". -Scanning dependencies of target rdScaffoldNetwork -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -[ 98%] Building CXX object Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdScaffoldNetwork_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap/rdScaffoldNetwork.cpp -In file included from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/MolOps.cpp:30: -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::int_type boost_adaptbx::python::streambuf::overflow(boost_adaptbx::python::streambuf::int_type)': -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:285:28: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 285 | if (df_isTextMode && c > STD_ASCII) { - | ~~^~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:297:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 297 | if ((!df_isTextMode || c <= STD_ASCII) && - | ~~^~~~~~~~~~~~ -/build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:308:30: warning: comparison of integer expressions of different signedness: 'boost_adaptbx::python::streambuf::int_type' {aka 'int'} and 'const unsigned int' [-Wsign-compare] - 308 | if (df_isTextMode && c > STD_ASCII && - | ~~^~~~~~~~~~~ -[ 98%] Linking CXX executable molStandardizeCatchTest -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeCatchTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o -o molStandardizeCatchTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 98%] Built target molStandardizeCatchTest -[ 98%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Drdmolops_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/ChiralityOps.cpp -[ 99%] Linking CXX executable tautomerQueryTestCatch -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_link_script CMakeFiles/tautomerQueryTestCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o -o tautomerQueryTestCatch ../../../lib/libRDKitTautomerQuery.so.1.2020.09.4 ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 99%] Built target tautomerQueryTestCatch In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -9539,8 +9518,8 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap/rdScaffoldNetwork.cpp:11: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Normalize.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -9560,19 +9539,14 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, - from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap/ChiralityOps.cpp:10: + from /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Metal.cpp:10: /usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[100%] Linking CXX shared module ../../../../rdkit/Chem/Draw/rdMolDraw2D.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/Draw/rdMolDraw2D.so CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o ../../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libfreetype.so /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[100%] Built target rdMolDraw2D /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In constructor 'boost_adaptbx::python::streambuf::streambuf(boost::python::api::object&, std::size_t)': /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:186:56: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] 186 | off_type py_pos = bp::extract(py_tell()); @@ -9580,30 +9554,91 @@ /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:156:58: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] 156 | off_type py_pos = bp::extract(py_tell()); | ^ -[100%] Linking CXX executable moldraw2DTestCatch -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTestCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/moldraw2DTestCatch.dir/catch_main.cpp.o CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -o moldraw2DTestCatch ../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 ../../../lib/libRDKitCIPLabeler.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libfreetype.so ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 98%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdMolStandardize_EXPORTS -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp +[ 98%] Building CXX object Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_32BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/reproducible-path/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/reproducible-path/rdkit-202009.4/Code -I/build/reproducible-path/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -c /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/catch_tests.cpp +[ 98%] Linking CXX shared module ../../../../rdkit/Chem/Scaffolds/rdScaffoldNetwork.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/Scaffolds/rdScaffoldNetwork.so CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o ../../../../lib/libRDKitScaffoldNetwork.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 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/usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[100%] Built target moldraw2DTestCatch +[ 98%] Built target rdScaffoldNetwork +[ 98%] Linking CXX executable rxnTestCatch +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/rxnTestCatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o -o rxnTestCatch ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libboost_serialization.so /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h: In member function 'virtual boost_adaptbx::python::streambuf::pos_type boost_adaptbx::python::streambuf::seekoff(boost_adaptbx::python::streambuf::off_type, std::ios_base::seekdir, std::ios_base::openmode)': /build/reproducible-path/rdkit-202009.4/Code/RDBoost/python_streambuf.h:404:16: warning: '*((void*)& +12)' may be used uninitialized in this function [-Wmaybe-uninitialized] 404 | result = off_type(bp::extract(py_tell())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[100%] Linking CXX shared module ../../../../rdkit/Chem/Scaffolds/rdScaffoldNetwork.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/Scaffolds/rdScaffoldNetwork.so CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o ../../../../lib/libRDKitScaffoldNetwork.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 98%] Linking CXX executable testReaction +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReaction.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testReaction.dir/testReaction.cpp.o -o testReaction ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libboost_serialization.so make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[100%] Built target rdScaffoldNetwork -[100%] Linking CXX shared module ../../../rdkit/Chem/rdmolops.so -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdmolops.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdmolops.so CMakeFiles/rdmolops.dir/rdmolops.cpp.o CMakeFiles/rdmolops.dir/MolOps.cpp.o CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o ../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libfreetype.so /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 98%] Built target testReaction +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 98%] Built target rxnTestCatch +[ 98%] Linking CXX executable moldraw2DTest1 +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTest1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/moldraw2DTest1.dir/test1.cpp.o -o moldraw2DTest1 ../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/i386-linux-gnu/libfreetype.so +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 98%] Built target moldraw2DTest1 +In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, + from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, + from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, + from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, + from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + 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-202009.4/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp:11: +/usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' + 13 | BOOST_HEADER_DEPRECATED("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/boost/bind.hpp:36:1: note: '#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.' + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +[ 99%] Linking CXX shared module ../../../../rdkit/Chem/Draw/rdMolDraw2D.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../../rdkit/Chem/Draw/rdMolDraw2D.so CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o ../../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libfreetype.so /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[100%] Built target rdmolops -[100%] Linking CXX executable testScaffoldNetwork +[ 99%] Built target rdMolDraw2D +[ 99%] Linking CXX executable testScaffoldNetwork cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/cmake -E cmake_link_script CMakeFiles/testScaffoldNetwork.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/testScaffoldNetwork.dir/catch_main.cpp.o CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -o testScaffoldNetwork ../../../lib/libRDKitScaffoldNetwork.so.1.2020.09.4 ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 99%] Linking CXX executable moldraw2DTestCatch +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTestCatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/moldraw2DTestCatch.dir/catch_main.cpp.o CMakeFiles/moldraw2DTestCatch.dir/catch_tests.cpp.o -o moldraw2DTestCatch ../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 ../../../lib/libRDKitCIPLabeler.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libfreetype.so ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 99%] Linking CXX shared module ../../../rdkit/Chem/rdmolops.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdmolops.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -o ../../../rdkit/Chem/rdmolops.so CMakeFiles/rdmolops.dir/rdmolops.cpp.o CMakeFiles/rdmolops.dir/MolOps.cpp.o CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o ../../../lib/libRDKitMolDraw2D.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libfreetype.so /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 99%] Built target testScaffoldNetwork +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 99%] Built target rdmolops +[ 99%] Built target moldraw2DTestCatch +[ 99%] Linking CXX shared module ../../../../rdkit/Chem/MolStandardize/rdMolStandardize.so +cd /build/reproducible-path/rdkit-202009.4/obj-i686-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 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -shared -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 ../../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libpython3.9.so /usr/lib/i386-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[100%] Built target testScaffoldNetwork +[ 99%] Built target rdMolStandardize +[100%] Linking CXX executable tautomerQueryTestCatch +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_link_script CMakeFiles/tautomerQueryTestCatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o -o tautomerQueryTestCatch ../../../lib/libRDKitTautomerQuery.so.1.2020.09.4 ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[100%] Built target tautomerQueryTestCatch +[100%] Linking CXX executable molStandardizeCatchTest +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeCatchTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/molStandardizeCatchTest.dir/catch_tests.cpp.o -o molStandardizeCatchTest ../../../lib/libRDKitMolStandardize.so.1.2020.09.4 ../../../lib/libRDKitChemReactions.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 ../../../lib/libRDKitFingerprints.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitDepictor.so.1.2020.09.4 ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/i386-linux-gnu/libcoordgen.so /usr/lib/i386-linux-gnu/libmaeparser.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so /usr/lib/i386-linux-gnu/libboost_system.so /usr/lib/i386-linux-gnu/libboost_iostreams.so /usr/lib/i386-linux-gnu/libboost_regex.so ../../../lib/libRDKitPartialCharges.so.1.2020.09.4 ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitMolTransforms.so.1.2020.09.4 ../../../lib/libRDKitEigenSolvers.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitRDGeometryLib.so.1.2020.09.4 ../../../lib/libRDKitDataStructs.so.1.2020.09.4 ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[100%] Built target molStandardizeCatchTest make[3]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' @@ -17417,10 +17452,10 @@ #export RDBASE=/build/reproducible-path/rdkit-202009.4 PYTHONPATH=/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/ LD_LIBRARY_PATH="/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu//lib:/usr/lib/libeatmydata" PYTHONPATH=/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/:/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu//rdkit/Chem/ LD_LIBRARY_PATH="/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu//lib:/usr/lib/libeatmydata" dh_auto_test dh_auto_test: warning: Compatibility levels before 10 are deprecated (level 9 in use) - cd obj-i686-linux-gnu && make -j8 test ARGS\+=-j8 + cd obj-i686-linux-gnu && make -j15 test ARGS\+=-j15 make[2]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' Running tests... -/usr/bin/ctest --force-new-ctest-process -j8 +/usr/bin/ctest --force-new-ctest-process -j15 Test project /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu Start 1: testCoordGen Start 2: pyCoordGen @@ -17430,283 +17465,304 @@ Start 6: testDataStructs Start 7: testFPB Start 8: testMultiFPB - 1/190 Test #4: testRDValue ............................ Passed 0.02 sec Start 9: pyBV - 2/190 Test #6: testDataStructs ........................ Passed 0.02 sec Start 10: pyDiscreteValueVect - 3/190 Test #7: testFPB ................................ Passed 0.02 sec Start 11: pySparseIntVect - 4/190 Test #8: testMultiFPB ........................... Passed 0.02 sec Start 12: pyFPB - 5/190 Test #10: pyDiscreteValueVect .................... Passed 0.41 sec Start 13: testTransforms - 6/190 Test #11: pySparseIntVect ........................ Passed 0.41 sec Start 14: testGrid - 7/190 Test #13: testTransforms ......................... Passed 0.01 sec Start 15: geometryTestsCatch - 8/190 Test #12: pyFPB .................................. Passed 0.42 sec + 1/190 Test #4: testRDValue ............................ Passed 0.02 sec Start 16: testPyGeometry - 9/190 Test #15: geometryTestsCatch ..................... Passed 0.01 sec + 2/190 Test #6: testDataStructs ........................ Passed 0.02 sec Start 17: testMatrices - 10/190 Test #17: testMatrices ........................... Passed 0.01 sec + 3/190 Test #7: testFPB ................................ Passed 0.02 sec Start 18: testConrec - 11/190 Test #14: testGrid ............................... Passed 0.05 sec + 4/190 Test #8: testMultiFPB ........................... Passed 0.02 sec Start 19: testAlignment - 12/190 Test #18: testConrec ............................. Passed 0.02 sec + 5/190 Test #13: testTransforms ......................... Passed 0.02 sec Start 20: pyAlignment - 13/190 Test #19: testAlignment .......................... Passed 0.01 sec + 6/190 Test #15: geometryTestsCatch ..................... Passed 0.02 sec Start 21: testOptimizer - 14/190 Test #21: testOptimizer .......................... Passed 0.00 sec + 7/190 Test #17: testMatrices ........................... Passed 0.01 sec Start 22: testUFFForceField - 15/190 Test #22: testUFFForceField ...................... Passed 0.15 sec + 8/190 Test #19: testAlignment .......................... Passed 0.01 sec Start 23: testMMFFForceField - 16/190 Test #1: testCoordGen ........................... Passed 0.66 sec + 9/190 Test #18: testConrec ............................. Passed 0.02 sec Start 24: pyForceFieldConstraints - 17/190 Test #20: pyAlignment ............................ Passed 0.27 sec + 10/190 Test #21: testOptimizer .......................... Passed 0.01 sec Start 25: testDistGeom - 18/190 Test #25: testDistGeom ........................... Passed 0.01 sec + 11/190 Test #14: testGrid ............................... Passed 0.04 sec Start 26: pyDistGeom - 19/190 Test #16: testPyGeometry ......................... Passed 0.36 sec + 12/190 Test #25: testDistGeom ........................... Passed 0.02 sec Start 27: graphmolTest1 - 20/190 Test #2: pyCoordGen ............................. Passed 0.85 sec + 13/190 Test #22: testUFFForceField ...................... Passed 0.11 sec Start 28: graphmolcpTest - 21/190 Test #28: graphmolcpTest ......................... Passed 0.03 sec + 14/190 Test #28: graphmolcpTest ......................... Passed 0.02 sec Start 29: graphmolqueryTest - 22/190 Test #29: graphmolqueryTest ...................... Passed 0.03 sec + 15/190 Test #29: graphmolqueryTest ...................... Passed 0.03 sec Start 30: graphmolMolOpsTest - 23/190 Test #26: pyDistGeom ............................. Passed 0.26 sec + 16/190 Test #11: pySparseIntVect ........................ Passed 0.27 sec Start 31: graphmoltestChirality - 24/190 Test #31: graphmoltestChirality .................. Passed 0.15 sec + 17/190 Test #10: pyDiscreteValueVect .................... Passed 0.27 sec Start 32: graphmoltestPickler - 25/190 Test #9: pyBV ................................... Passed 1.33 sec + 18/190 Test #20: pyAlignment ............................ Passed 0.26 sec Start 33: graphmoltestPicklerGlobalSetting - 26/190 Test #33: graphmoltestPicklerGlobalSetting ....... Passed 0.03 sec + 19/190 Test #12: pyFPB .................................. Passed 0.28 sec Start 34: graphmolIterTest - 27/190 Test #34: graphmolIterTest ....................... Passed 0.03 sec + 20/190 Test #26: pyDistGeom ............................. Passed 0.25 sec Start 35: hanoiTest - 28/190 Test #32: graphmoltestPickler .................... Passed 0.42 sec + 21/190 Test #34: graphmolIterTest ....................... Passed 0.02 sec Start 36: graphmolMemTest1 - 29/190 Test #36: graphmolMemTest1 ....................... Passed 0.01 sec + 22/190 Test #16: testPyGeometry ......................... Passed 0.30 sec Start 37: resMolSupplierTest - 30/190 Test #24: pyForceFieldConstraints ................ Passed 1.01 sec + 23/190 Test #33: graphmoltestPicklerGlobalSetting ....... Passed 0.03 sec Start 38: molBundleTest - 31/190 Test #38: molBundleTest .......................... Passed 0.02 sec + 24/190 Test #36: graphmolMemTest1 ....................... Passed 0.01 sec Start 39: testSGroup - 32/190 Test #39: testSGroup ............................. Passed 0.05 sec + 25/190 Test #38: molBundleTest .......................... Passed 0.03 sec Start 40: test-valgrind - 33/190 Test #40: test-valgrind .......................... Passed 0.03 sec + 26/190 Test #39: testSGroup ............................. Passed 0.04 sec Start 41: graphmolTestsCatch - 34/190 Test #41: graphmolTestsCatch ..................... Passed 0.06 sec + 27/190 Test #31: graphmoltestChirality .................. Passed 0.09 sec Start 42: graphmolSGroupCatch - 35/190 Test #42: graphmolSGroupCatch .................... Passed 0.04 sec + 28/190 Test #40: test-valgrind .......................... Passed 0.03 sec Start 43: graphmolAdjustQueryCatch - 36/190 Test #43: graphmolAdjustQueryCatch ............... Passed 0.07 sec + 29/190 Test #42: graphmolSGroupCatch .................... Passed 0.03 sec Start 44: chiralityTestsCatch - 37/190 Test #44: chiralityTestsCatch .................... Passed 0.05 sec + 30/190 Test #41: graphmolTestsCatch ..................... Passed 0.05 sec Start 45: testDepictor - 38/190 Test #30: graphmolMolOpsTest ..................... Passed 1.38 sec + 31/190 Test #2: pyCoordGen ............................. Passed 0.44 sec Start 46: pyDepictor - 39/190 Test #45: testDepictor ........................... Passed 0.42 sec + 32/190 Test #43: graphmolAdjustQueryCatch ............... Passed 0.06 sec Start 47: smiTest1 - 40/190 Test #3: testDict ............................... Passed 2.75 sec + 33/190 Test #44: chiralityTestsCatch .................... Passed 0.04 sec Start 48: smiTest2 - 41/190 Test #48: smiTest2 ............................... Passed 0.01 sec + 34/190 Test #1: testCoordGen ........................... Passed 0.47 sec Start 49: cxsmilesTest - 42/190 Test #49: cxsmilesTest ........................... Passed 0.03 sec + 35/190 Test #48: smiTest2 ............................... Passed 0.02 sec Start 50: smaTest1 - 43/190 Test #46: pyDepictor ............................. Passed 0.61 sec + 36/190 Test #49: cxsmilesTest ........................... Passed 0.03 sec Start 51: smiTestCatch - 44/190 Test #51: smiTestCatch ........................... Passed 0.10 sec + 37/190 Test #51: smiTestCatch ........................... Passed 0.05 sec Start 52: fileParsersTest1 - 45/190 Test #50: smaTest1 ............................... Passed 0.21 sec + 38/190 Test #32: graphmoltestPickler .................... Passed 0.28 sec Start 53: testMolSupplier - 46/190 Test #53: testMolSupplier ........................ Passed 0.37 sec + 39/190 Test #50: smaTest1 ............................... Passed 0.17 sec Start 54: testGeneralFileReader - 47/190 Test #54: testGeneralFileReader .................. Passed 0.14 sec + 40/190 Test #47: smiTest1 ............................... Passed 0.23 sec Start 55: testMultithreadedMolSupplier - 48/190 Test #47: smiTest1 ............................... Passed 1.55 sec + 41/190 Test #45: testDepictor ........................... Passed 0.33 sec Start 56: testMolWriter - 49/190 Test #56: testMolWriter .......................... Passed 0.41 sec + 42/190 Test #54: testGeneralFileReader .................. Passed 0.13 sec Start 57: testTplParser - 50/190 Test #57: testTplParser .......................... Passed 0.03 sec + 43/190 Test #57: testTplParser .......................... Passed 0.04 sec Start 58: testMol2ToMol - 51/190 Test #58: testMol2ToMol .......................... Passed 0.06 sec + 44/190 Test #9: pyBV ................................... Passed 0.83 sec Start 59: testSequence - 52/190 Test #59: testSequence ........................... Passed 0.06 sec + 45/190 Test #58: testMol2ToMol .......................... Passed 0.05 sec Start 60: testExtendedStereoParsing - 53/190 Test #60: testExtendedStereoParsing .............. Passed 0.04 sec + 46/190 Test #59: testSequence ........................... Passed 0.05 sec Start 61: fileParsersCatchTest - 54/190 Test #61: fileParsersCatchTest ................... Passed 0.08 sec + 47/190 Test #60: testExtendedStereoParsing .............. Passed 0.04 sec Start 62: testPropertyLists - 55/190 Test #62: testPropertyLists ...................... Passed 0.03 sec + 48/190 Test #53: testMolSupplier ........................ Passed 0.33 sec Start 63: testSubstructMatch - 56/190 Test #63: testSubstructMatch ..................... Passed 0.55 sec + 49/190 Test #46: pyDepictor ............................. Passed 0.50 sec Start 64: substructTestCatch - 57/190 Test #64: substructTestCatch ..................... Passed 0.04 sec + 50/190 Test #62: testPropertyLists ...................... Passed 0.04 sec Start 65: testReaction - 58/190 Test #65: testReaction ........................... Passed 0.59 sec + 51/190 Test #61: fileParsersCatchTest ................... Passed 0.07 sec Start 66: testReactionFingerprints - 59/190 Test #66: testReactionFingerprints ............... Passed 0.13 sec + 52/190 Test #24: pyForceFieldConstraints ................ Passed 0.93 sec Start 67: testEnumeration - 60/190 Test #35: hanoiTest .............................. Passed 4.79 sec + 53/190 Test #64: substructTestCatch ..................... Passed 0.06 sec Start 68: rxnTestCatch - 61/190 Test #68: rxnTestCatch ........................... Passed 0.10 sec + 54/190 Test #66: testReactionFingerprints ............... Passed 0.07 sec Start 69: pyChemReactions - 62/190 Test #37: resMolSupplierTest ..................... Passed 5.32 sec + 55/190 Test #68: rxnTestCatch ........................... Passed 0.09 sec Start 70: pyChemReactionEnumerations - 63/190 Test #69: pyChemReactions ........................ Passed 0.75 sec + 56/190 Test #56: testMolWriter .......................... Passed 0.36 sec Start 71: pyChemReactionSanitize - 64/190 Test #71: pyChemReactionSanitize ................. Passed 0.39 sec + 57/190 Test #63: testSubstructMatch ..................... Passed 0.46 sec Start 72: testChemTransforms - 65/190 Test #72: testChemTransforms ..................... Passed 0.12 sec + 58/190 Test #71: pyChemReactionSanitize ................. Passed 0.33 sec Start 73: chemTransformsTestCatch - 66/190 Test #73: chemTransformsTestCatch ................ Passed 0.04 sec + 59/190 Test #72: testChemTransforms ..................... Passed 0.10 sec Start 74: tautomerQueryTestCatch - 67/190 Test #74: tautomerQueryTestCatch ................. Passed 0.13 sec + 60/190 Test #73: chemTransformsTestCatch ................ Passed 0.03 sec Start 75: pyTautomerQuery - 68/190 Test #75: pyTautomerQuery ........................ Passed 0.34 sec + 61/190 Test #65: testReaction ........................... Passed 0.55 sec Start 76: testSubgraphs1 - 69/190 Test #76: testSubgraphs1 ......................... Passed 0.47 sec + 62/190 Test #30: graphmolMolOpsTest ..................... Passed 1.29 sec Start 77: testSubgraphs2 - 70/190 Test #77: testSubgraphs2 ......................... Passed 0.03 sec + 63/190 Test #77: testSubgraphs2 ......................... Passed 0.03 sec Start 78: filterCatalogTest - 71/190 Test #78: filterCatalogTest ...................... Passed 0.20 sec + 64/190 Test #74: tautomerQueryTestCatch ................. Passed 0.15 sec Start 79: pyFilterCatalog - 72/190 Test #70: pyChemReactionEnumerations ............. Passed 2.86 sec + 65/190 Test #69: pyChemReactions ........................ Passed 0.61 sec Start 80: testFragCatalog - 73/190 Test #79: pyFilterCatalog ........................ Passed 1.22 sec + 66/190 Test #78: filterCatalogTest ...................... Passed 0.22 sec Start 81: pyFragCatalog - 74/190 Test #81: pyFragCatalog .......................... Passed 0.40 sec + 67/190 Test #75: pyTautomerQuery ........................ Passed 0.32 sec Start 82: testDescriptors - 75/190 Test #80: testFragCatalog ........................ Passed 1.25 sec + 68/190 Test #76: testSubgraphs1 ......................... Passed 0.42 sec Start 83: testAUTOCORR2D - 76/190 Test #83: testAUTOCORR2D ......................... Passed 1.15 sec + 69/190 Test #3: testDict ............................... Passed 2.09 sec Start 84: testATF - 77/190 Test #84: testATF ................................ Passed 0.07 sec + 70/190 Test #81: pyFragCatalog .......................... Passed 0.36 sec Start 85: testBCUT - 78/190 Test #52: fileParsersTest1 ....................... Passed 10.06 sec + 71/190 Test #84: testATF ................................ Passed 0.04 sec Start 86: testEEM - 79/190 Test #55: testMultithreadedMolSupplier ........... Passed 10.26 sec + 72/190 Test #83: testAUTOCORR2D ......................... Passed 0.44 sec Start 87: testPBF - 80/190 Test #85: testBCUT ............................... Passed 1.72 sec + 73/190 Test #80: testFragCatalog ........................ Passed 0.94 sec Start 88: testRDFcustom - 81/190 Test #87: testPBF ................................ Passed 0.29 sec + 74/190 Test #87: testPBF ................................ Passed 0.30 sec Start 89: testRDF - 82/190 Test #86: testEEM ................................ Passed 1.07 sec + 75/190 Test #86: testEEM ................................ Passed 0.81 sec Start 90: testMORSE - 83/190 Test #82: testDescriptors ........................ Passed 4.62 sec + 76/190 Test #79: pyFilterCatalog ........................ Passed 1.46 sec Start 91: test3D - 84/190 Test #90: testMORSE .............................. Passed 1.37 sec + 77/190 Test #85: testBCUT ............................... Passed 1.09 sec Start 92: testWHIM - 85/190 Test #91: test3D ................................. Passed 0.56 sec + 78/190 Test #92: testWHIM ............................... Passed 0.39 sec Start 93: testGETAWAY - 86/190 Test #89: testRDF ................................ Passed 1.64 sec + 79/190 Test #91: test3D ................................. Passed 0.92 sec Start 94: testAUTOCORR3D - 87/190 Test #92: testWHIM ............................... Passed 0.53 sec + 80/190 Test #90: testMORSE .............................. Passed 1.05 sec Start 95: testCoulombMat - 88/190 Test #95: testCoulombMat ......................... Passed 0.04 sec + 81/190 Test #95: testCoulombMat ......................... Passed 0.06 sec Start 96: pyMolDescriptors - 89/190 Test #94: testAUTOCORR3D ......................... Passed 0.48 sec + 82/190 Test #70: pyChemReactionEnumerations ............. Passed 3.01 sec Start 97: pyMolDescriptors3D - 90/190 Test #96: pyMolDescriptors ....................... Passed 0.49 sec + 83/190 Test #37: resMolSupplierTest ..................... Passed 3.78 sec Start 98: testFingerprints - 91/190 Test #97: pyMolDescriptors3D ..................... Passed 0.58 sec + 84/190 Test #35: hanoiTest .............................. Passed 3.94 sec Start 99: testMHFPFingerprint - 92/190 Test #99: testMHFPFingerprint .................... Passed 0.07 sec + 85/190 Test #99: testMHFPFingerprint .................... Passed 0.08 sec Start 100: testFingerprintGenerators - 93/190 Test #100: testFingerprintGenerators .............. Passed 0.88 sec + 86/190 Test #96: pyMolDescriptors ....................... Passed 0.43 sec Start 101: fpTestCatch - 94/190 Test #101: fpTestCatch ............................ Passed 0.03 sec + 87/190 Test #94: testAUTOCORR3D ......................... Passed 0.56 sec Start 102: pyTestGenerator - 95/190 Test #102: pyTestGenerator ........................ Passed 0.31 sec + 88/190 Test #101: fpTestCatch ............................ Passed 0.07 sec Start 103: pyTestMHFP - 96/190 Test #103: pyTestMHFP ............................. Passed 0.31 sec + 89/190 Test #82: testDescriptors ........................ Passed 2.84 sec Start 104: testPartialCharges - 97/190 Test #67: testEnumeration ........................ Passed 12.42 sec + 90/190 Test #104: testPartialCharges ..................... Passed 0.03 sec Start 105: pyPartialCharges - 98/190 Test #104: testPartialCharges ..................... Passed 0.07 sec + 91/190 Test #97: pyMolDescriptors3D ..................... Passed 0.58 sec Start 106: testMolTransforms - 99/190 Test #106: testMolTransforms ...................... Passed 0.08 sec + 92/190 Test #106: testMolTransforms ...................... Passed 0.08 sec Start 107: pyMolTransforms -100/190 Test #107: pyMolTransforms ........................ Passed 0.39 sec + 93/190 Test #102: pyTestGenerator ........................ Passed 0.29 sec Start 108: testMMFFForceFieldHelpers -101/190 Test #105: pyPartialCharges ....................... Passed 0.89 sec + 94/190 Test #103: pyTestMHFP ............................. Passed 0.30 sec Start 109: testMMFFForceFieldHelpersMultiThread -102/190 Test #93: testGETAWAY ............................ Passed 4.33 sec + 95/190 Test #105: pyPartialCharges ....................... Passed 0.43 sec Start 110: testUFFForceFieldHelpers -103/190 Test #109: testMMFFForceFieldHelpersMultiThread ... Passed 0.77 sec + 96/190 Test #107: pyMolTransforms ........................ Passed 0.37 sec Start 111: testCrystalForceField -104/190 Test #111: testCrystalForceField .................. Passed 0.14 sec + 97/190 Test #111: testCrystalForceField .................. Passed 0.14 sec Start 112: pyForceFieldHelpers -105/190 Test #112: pyForceFieldHelpers .................... Passed 0.77 sec + 98/190 Test #100: testFingerprintGenerators .............. Passed 1.06 sec Start 113: testDistGeomHelpers -106/190 Test #98: testFingerprints ....................... Passed 5.65 sec + 99/190 Test #109: testMMFFForceFieldHelpersMultiThread ... Passed 0.55 sec Start 114: pyDistGeomHelpers -107/190 Test #88: testRDFcustom .......................... Passed 8.93 sec +100/190 Test #112: pyForceFieldHelpers .................... Passed 0.46 sec Start 115: testMolAlign -108/190 Test #115: testMolAlign ........................... Passed 0.41 sec +101/190 Test #89: testRDF ................................ Passed 3.11 sec Start 116: testO3AAlign -109/190 Test #108: testMMFFForceFieldHelpers .............. Passed 7.79 sec +102/190 Test #115: testMolAlign ........................... Passed 0.19 sec Start 117: pyMolAlign -110/190 Test #110: testUFFForceFieldHelpers ............... Passed 8.46 sec +103/190 Test #93: testGETAWAY ............................ Passed 3.17 sec Start 118: testFeatures -111/190 Test #118: testFeatures ........................... Passed 0.03 sec +104/190 Test #118: testFeatures ........................... Passed 0.05 sec Start 119: pyChemicalFeatures -112/190 Test #119: pyChemicalFeatures ..................... Passed 0.47 sec +105/190 Test #119: pyChemicalFeatures ..................... Passed 0.40 sec Start 120: testShapeHelpers -113/190 Test #120: testShapeHelpers ....................... Passed 0.05 sec +106/190 Test #120: testShapeHelpers ....................... Passed 0.05 sec Start 121: pyShapeHelpers -114/190 Test #121: pyShapeHelpers ......................... Passed 0.52 sec +107/190 Test #121: pyShapeHelpers ......................... Passed 0.40 sec Start 122: testMolCatalog -115/190 Test #122: testMolCatalog ......................... Passed 0.03 sec +108/190 Test #122: testMolCatalog ......................... Passed 0.07 sec Start 123: pyMolCatalog -116/190 Test #123: pyMolCatalog ........................... Passed 0.33 sec +109/190 Test #123: pyMolCatalog ........................... Passed 0.53 sec Start 124: moldraw2DTest1 -117/190 Test #23: testMMFFForceField ..................... Passed 32.34 sec +110/190 Test #55: testMultithreadedMolSupplier ........... Passed 7.62 sec Start 125: moldraw2DTestCatch -118/190 Test #125: moldraw2DTestCatch ..................... Passed 0.27 sec +111/190 Test #125: moldraw2DTestCatch ..................... Passed 0.33 sec Start 126: moldraw2DRxnTest1 -119/190 Test #126: moldraw2DRxnTest1 ...................... Passed 0.22 sec +112/190 Test #52: fileParsersTest1 ....................... Passed 8.37 sec Start 127: pyMolDraw2D -120/190 Test #127: pyMolDraw2D ............................ Passed 0.76 sec +113/190 Test #126: moldraw2DRxnTest1 ...................... Passed 0.47 sec Start 128: testFMCS -121/190 Test #124: moldraw2DTest1 ......................... Passed 7.69 sec +114/190 Test #108: testMMFFForceFieldHelpers .............. Passed 4.90 sec Start 129: pyFMCS -122/190 Test #128: testFMCS ...............................Child aborted***Exception: 3.99 sec +115/190 Test #127: pyMolDraw2D ............................ Passed 1.04 sec + Start 130: FMCStest +116/190 Test #130: FMCStest ............................... Passed 0.07 sec + Start 131: molHashCatchTest +117/190 Test #131: molHashCatchTest ....................... Passed 0.09 sec + Start 132: pyMolHash +118/190 Test #110: testUFFForceFieldHelpers ............... Passed 5.27 sec + Start 133: testMMPA +119/190 Test #132: pyMolHash .............................. Passed 0.31 sec + Start 134: pyMMPA +120/190 Test #98: testFingerprints ....................... Passed 6.41 sec + Start 135: testCIPLabeler +121/190 Test #133: testMMPA ............................... Passed 0.24 sec + Start 136: pyCIPLabelsWrapTest +122/190 Test #135: testCIPLabeler ......................... Passed 0.12 sec + Start 137: pyCIPLabelsValidation +123/190 Test #136: pyCIPLabelsWrapTest .................... Passed 0.39 sec + Start 138: deprotectTest +124/190 Test #138: deprotectTest .......................... Passed 0.19 sec + Start 139: pyDeprotect +125/190 Test #139: pyDeprotect ............................ Passed 0.48 sec + Start 140: testReducedGraphs +126/190 Test #140: testReducedGraphs ...................... Passed 0.10 sec + Start 141: pyReducedGraphs +127/190 Test #141: pyReducedGraphs ........................ Passed 0.41 sec + Start 142: trajectoryTest +128/190 Test #134: pyMMPA ................................. Passed 2.02 sec + Start 143: substructLibraryTest +129/190 Test #128: testFMCS ...............................Child aborted***Exception: 3.52 sec MCS: [#6]-[#6]1-[#6]-[#6]-[#6]-[#6]-[#6]-1 7 atoms, 7 bonds Time elapsed 0.000 seconds test32() 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 -Time elapsed 0.112 seconds +Time elapsed 0.182 seconds test190() 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 -Time elapsed 0.014 seconds +Time elapsed 0.036 seconds test3() MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6]-[#6](=[#8])-[#7]-[#6]-[#6]-[#6]-[#6] 14 atoms, 14 bonds -Time elapsed 0.022 seconds +Time elapsed 0.074 seconds testSimpleFast() 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 -Time elapsed 0.173 seconds +Time elapsed 0.383 seconds testSimple() MCS: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds -Time elapsed 0.210 seconds +Time elapsed 0.213 seconds MCS MatchFusedRings: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds -Time elapsed 0.193 seconds +Time elapsed 0.146 seconds MCS MatchFusedRingsStrict: [#6]-&!@[#6]-&!@[#6](-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6]-&!@[#7]-&!@[#6](=&!@[#8])-&!@[#6])-&!@[#6](-&!@[#7]-&!@[#6])=&!@[#8] 15 atoms, 14 bonds -Time elapsed 0.185 seconds +Time elapsed 0.147 seconds testSegFault() MCS: [#6]1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@1 6 atoms, 6 bonds -Time elapsed 0.014 seconds +Time elapsed 0.012 seconds MCS MatchFusedRings: [#6]1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@1 6 atoms, 6 bonds -Time elapsed 0.016 seconds +Time elapsed 0.014 seconds MCS MatchFusedRingsStrict: [#6]1:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@[#6]:&@1 6 atoms, 6 bonds -Time elapsed 0.019 seconds +Time elapsed 0.016 seconds testThreshold() MCS: [#6]-[#6]-[#6] 3 atoms, 2 bonds @@ -17714,15 +17770,15 @@ testRing1() 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 -Time elapsed 1.118 seconds +Time elapsed 0.988 seconds 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 -Time elapsed 0.815 seconds +Time elapsed 0.333 seconds MCS MatchFusedRingsStrict: [#6]1:&@[#6]:&@[#7]:&@[#6](:&@[#6]:&@[#6]:&@1)-&!@[#6](=&!@[#8])-&!@[#8]-&!@[#6](-&!@[#6])-&!@[#6] 12 atoms, 12 bonds -Time elapsed 0.504 seconds +Time elapsed 0.355 seconds testAtomCompareIsotopes() MCS: [0*]-[0*]-[13*] 3 atoms, 2 bonds -Time elapsed 0.005 seconds +Time elapsed 0.004 seconds testAtomCompareAnyAtom() MCS: [#6]1:[#6]:[#6]:[#6]:[#6]:[#6]:1-[#6,#7,#8,#9,#17] 7 atoms, 7 bonds @@ -17743,20 +17799,20 @@ test18() 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 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 -Time elapsed 0.011 seconds +Time elapsed 0.010 seconds test504() 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 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 -Time elapsed 0.138 seconds +Time elapsed 0.126 seconds MCS: [#6]-[#6]1-[#6]-[#6]-[#6]-[#6]-[#6]-1 7 atoms, 7 bonds Time elapsed 0.002 seconds 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 -Time elapsed 0.041 seconds +Time elapsed 0.036 seconds Query Cc1c(F)c(N2CCNC(C)C2)cc2c1c(=O)c(C(=O)O)cn2C1CC1 26(26) atoms, 29(28) bonds -1 Seeds:1 MCS 25 atoms, 28 bonds for 0.0015 seconds. bond[0]=6 +1 Seeds:1 MCS 25 atoms, 28 bonds for 0.0014 seconds. bond[0]=6 STATISTICS: -Total Growing Steps = 1, MCS found on 1 step, for 0.0015 seconds +Total Growing Steps = 1, MCS found on 1 step, for 0.0014 seconds Initial Seeds = 1, Mismatched 0 Inspected Seeds = 2 Rejected by BestSize = 0 @@ -17878,146 +17934,125 @@ terminate called after throwing an instance of 'Invar::Invariant' what(): Expression Failed: - Start 130: FMCStest -123/190 Test #130: FMCStest ............................... Passed 0.06 sec - Start 131: molHashCatchTest -124/190 Test #131: molHashCatchTest ....................... Passed 0.08 sec - Start 132: pyMolHash -125/190 Test #132: pyMolHash .............................. Passed 0.65 sec - Start 133: testMMPA -126/190 Test #133: testMMPA ............................... Passed 0.27 sec - Start 134: pyMMPA -127/190 Test #134: pyMMPA ................................. Passed 2.28 sec - Start 135: testCIPLabeler -128/190 Test #135: testCIPLabeler ......................... Passed 0.05 sec - Start 136: pyCIPLabelsWrapTest -129/190 Test #136: pyCIPLabelsWrapTest .................... Passed 0.32 sec - Start 137: pyCIPLabelsValidation -130/190 Test #27: graphmolTest1 .......................... Passed 42.32 sec - Start 138: deprotectTest -131/190 Test #138: deprotectTest .......................... Passed 0.07 sec - Start 139: pyDeprotect -132/190 Test #139: pyDeprotect ............................ Passed 0.39 sec - Start 140: testReducedGraphs -133/190 Test #140: testReducedGraphs ...................... Passed 0.04 sec - Start 141: pyReducedGraphs -134/190 Test #141: pyReducedGraphs ........................ Passed 0.34 sec - Start 142: trajectoryTest -135/190 Test #129: pyFMCS ................................. Passed 6.59 sec - Start 143: substructLibraryTest -136/190 Test #142: trajectoryTest ......................... Passed 0.63 sec Start 144: pySubstructLibrary -137/190 Test #143: substructLibraryTest ................... Passed 1.54 sec +130/190 Test #142: trajectoryTest ......................... Passed 0.63 sec Start 145: testRGroupDecomp -138/190 Test #117: pyMolAlign ............................. Passed 20.85 sec +131/190 Test #88: testRDFcustom .......................... Passed 10.53 sec Start 146: pyRGroupDecomposition -139/190 Test #144: pySubstructLibrary ..................... Passed 6.00 sec +132/190 Test #67: testEnumeration ........................ Passed 12.91 sec Start 147: molInterchangeTest1 -140/190 Test #147: molInterchangeTest1 .................... Passed 0.04 sec +133/190 Test #147: molInterchangeTest1 .................... Passed 0.04 sec Start 148: pyMolInterchange -141/190 Test #148: pyMolInterchange ....................... Passed 0.34 sec +134/190 Test #148: pyMolInterchange ....................... Passed 0.28 sec Start 149: testSLNParse -142/190 Test #145: testRGroupDecomp ....................... Passed 5.44 sec +135/190 Test #149: testSLNParse ........................... Passed 0.08 sec Start 150: pySLNParse -143/190 Test #149: testSLNParse ........................... Passed 0.05 sec +136/190 Test #124: moldraw2DTest1 ......................... Passed 6.05 sec Start 151: pyGraphMolWrap -144/190 Test #150: pySLNParse ............................. Passed 0.32 sec +137/190 Test #150: pySLNParse ............................. Passed 0.32 sec Start 152: pyTestConformerWrap -145/190 Test #152: pyTestConformerWrap .................... Passed 0.36 sec +138/190 Test #129: pyFMCS ................................. Passed 4.97 sec Start 153: pyTestTrajectory -146/190 Test #146: pyRGroupDecomposition .................. Passed 5.04 sec +139/190 Test #152: pyTestConformerWrap .................... Passed 0.53 sec Start 154: pyTestSGroups -147/190 Test #153: pyTestTrajectory ....................... Passed 0.96 sec +140/190 Test #153: pyTestTrajectory ....................... Passed 0.72 sec Start 155: pyTestThreads -148/190 Test #154: pyTestSGroups .......................... Passed 0.35 sec +141/190 Test #154: pyTestSGroups .......................... Passed 0.42 sec Start 156: pyTestMultithreadedMolSupplier -149/190 Test #156: pyTestMultithreadedMolSupplier ......... Passed 0.49 sec +142/190 Test #143: substructLibraryTest ................... Passed 3.25 sec Start 157: pyTestPropertyLists -150/190 Test #155: pyTestThreads .......................... Passed 1.01 sec +143/190 Test #157: pyTestPropertyLists .................... Passed 0.27 sec Start 158: molStandardizeTest -151/190 Test #157: pyTestPropertyLists .................... Passed 0.35 sec +144/190 Test #156: pyTestMultithreadedMolSupplier ......... Passed 0.43 sec Start 159: molNormalizeTest -152/190 Test #159: molNormalizeTest ....................... Passed 0.15 sec +145/190 Test #159: molNormalizeTest ....................... Passed 0.14 sec Start 160: molValidateTest -153/190 Test #160: molValidateTest ........................ Passed 0.06 sec +146/190 Test #160: molValidateTest ........................ Passed 0.11 sec Start 161: molChargeTest -154/190 Test #137: pyCIPLabelsValidation .................. Passed 12.11 sec +147/190 Test #161: molChargeTest .......................... Passed 0.11 sec Start 162: molTautomerTest -155/190 Test #161: molChargeTest .......................... Passed 0.13 sec +148/190 Test #158: molStandardizeTest ..................... Passed 1.22 sec Start 163: molStandardizeSmallTest -156/190 Test #163: molStandardizeSmallTest ................ Passed 0.06 sec +149/190 Test #163: molStandardizeSmallTest ................ Passed 0.10 sec Start 164: molFragmentTest -157/190 Test #164: molFragmentTest ........................ Passed 0.08 sec +150/190 Test #164: molFragmentTest ........................ Passed 0.08 sec Start 165: molStandardizeCatchTest -158/190 Test #165: molStandardizeCatchTest ................ Passed 0.10 sec +151/190 Test #165: molStandardizeCatchTest ................ Passed 0.08 sec Start 166: pyMolStandardize -159/190 Test #158: molStandardizeTest ..................... Passed 1.36 sec +152/190 Test #155: pyTestThreads .......................... Passed 2.49 sec Start 167: testScaffoldNetwork -160/190 Test #167: testScaffoldNetwork .................... Passed 1.09 sec +153/190 Test #146: pyRGroupDecomposition .................. Passed 5.00 sec Start 168: pyScaffoldNetwork -161/190 Test #168: pyScaffoldNetwork ...................... Passed 0.47 sec +154/190 Test #145: testRGroupDecomp ....................... Passed 5.57 sec Start 169: pyScaffoldNetworkPickling -162/190 Test #169: pyScaffoldNetworkPickling .............. Passed 0.39 sec +155/190 Test #168: pyScaffoldNetwork ...................... Passed 0.31 sec Start 170: testMolEnumerator -163/190 Test #170: testMolEnumerator ...................... Passed 0.06 sec +156/190 Test #170: testMolEnumerator ...................... Passed 0.08 sec Start 171: pyMolEnumerator -164/190 Test #171: pyMolEnumerator ........................ Passed 0.32 sec +157/190 Test #169: pyScaffoldNetworkPickling .............. Passed 0.33 sec Start 172: testAbbreviations -165/190 Test #172: testAbbreviations ...................... Passed 0.05 sec +158/190 Test #172: testAbbreviations ...................... Passed 0.05 sec Start 173: pyAbbreviations -166/190 Test #166: pyMolStandardize ....................... Passed 3.12 sec +159/190 Test #171: pyMolEnumerator ........................ Passed 0.26 sec Start 174: testQuery -167/190 Test #174: testQuery .............................. Passed 0.01 sec +160/190 Test #174: testQuery .............................. Passed 0.02 sec Start 175: testMatCalc -168/190 Test #175: testMatCalc ............................ Passed 0.01 sec +161/190 Test #175: testMatCalc ............................ Passed 0.01 sec Start 176: pyMatCalc -169/190 Test #162: molTautomerTest ........................ Passed 3.58 sec +162/190 Test #173: pyAbbreviations ........................ Passed 0.31 sec Start 177: testSimDivPickers -170/190 Test #177: testSimDivPickers ...................... Passed 0.01 sec +163/190 Test #177: testSimDivPickers ...................... Passed 0.01 sec Start 178: pickersTestsCatch -171/190 Test #178: pickersTestsCatch ...................... Passed 0.11 sec +164/190 Test #167: testScaffoldNetwork .................... Passed 1.21 sec Start 179: pySimDivPickers -172/190 Test #173: pyAbbreviations ........................ Passed 0.33 sec +165/190 Test #178: pickersTestsCatch ...................... Passed 0.11 sec Start 180: pyRanker -173/190 Test #180: pyRanker ............................... Passed 0.31 sec +166/190 Test #180: pyRanker ............................... Passed 0.25 sec Start 181: testChemicalFeatures -174/190 Test #181: testChemicalFeatures ................... Passed 0.01 sec +167/190 Test #181: testChemicalFeatures ................... Passed 0.01 sec Start 182: pyFeatures -175/190 Test #176: pyMatCalc .............................. Passed 0.75 sec +168/190 Test #176: pyMatCalc .............................. Passed 0.72 sec Start 183: pythonTestDbCLI -176/190 Test #182: pyFeatures ............................. Passed 0.32 sec +169/190 Test #162: molTautomerTest ........................ Passed 3.18 sec Start 184: pythonTestDirML -177/190 Test #114: pyDistGeomHelpers ...................... Passed 37.55 sec +170/190 Test #182: pyFeatures ............................. Passed 0.27 sec Start 185: pythonTestDirDataStructs -178/190 Test #179: pySimDivPickers ........................ Passed 2.49 sec +171/190 Test #166: pyMolStandardize ....................... Passed 2.53 sec Start 186: pythonTestDirDbase -179/190 Test #185: pythonTestDirDataStructs ............... Passed 1.27 sec +172/190 Test #186: pythonTestDirDbase ..................... Passed 0.64 sec Start 187: pythonTestDirSimDivFilters -180/190 Test #186: pythonTestDirDbase ..................... Passed 0.85 sec +173/190 Test #185: pythonTestDirDataStructs ............... Passed 1.16 sec Start 188: pythonTestDirVLib -181/190 Test #187: pythonTestDirSimDivFilters ............. Passed 0.46 sec +174/190 Test #179: pySimDivPickers ........................ Passed 1.83 sec Start 189: pythonTestDirChem -182/190 Test #188: pythonTestDirVLib ...................... Passed 0.60 sec +175/190 Test #187: pythonTestDirSimDivFilters ............. Passed 0.39 sec Start 190: pythonTestSping -183/190 Test #190: pythonTestSping ........................ Passed 0.77 sec -184/190 Test #5: testConcurrentQueue .................... Passed 64.35 sec -185/190 Test #151: pyGraphMolWrap ......................... Passed 15.82 sec -186/190 Test #184: pythonTestDirML ........................ Passed 16.02 sec -187/190 Test #116: testO3AAlign ........................... Passed 51.85 sec -188/190 Test #183: pythonTestDbCLI ........................ Passed 20.75 sec -189/190 Test #113: testDistGeomHelpers .................... Passed 69.05 sec -190/190 Test #189: pythonTestDirChem ......................***Failed 135.63 sec +176/190 Test #188: pythonTestDirVLib ...................... Passed 0.60 sec +177/190 Test #190: pythonTestSping ........................ Passed 0.68 sec +178/190 Test #144: pySubstructLibrary ..................... Passed 9.09 sec +179/190 Test #23: testMMFFForceField ..................... Passed 21.75 sec +180/190 Test #117: pyMolAlign ............................. Passed 16.32 sec +181/190 Test #137: pyCIPLabelsValidation .................. Passed 12.12 sec +182/190 Test #151: pyGraphMolWrap ......................... Passed 12.21 sec +183/190 Test #27: graphmolTest1 .......................... Passed 27.01 sec +184/190 Test #114: pyDistGeomHelpers ...................... Passed 22.98 sec +185/190 Test #184: pythonTestDirML ........................ Passed 10.60 sec +186/190 Test #5: testConcurrentQueue .................... Passed 31.14 sec +187/190 Test #183: pythonTestDbCLI ........................ Passed 14.04 sec +188/190 Test #116: testO3AAlign ........................... Passed 30.43 sec +189/190 Test #113: testDistGeomHelpers .................... Passed 40.39 sec +190/190 Test #189: pythonTestDirChem ......................***Failed 81.36 sec ...... ---------------------------------------------------------------------- -Ran 6 tests in 0.117s +Ran 6 tests in 0.111s OK ...... ---------------------------------------------------------------------- -Ran 6 tests in 0.054s +Ran 6 tests in 0.048s OK -....[05:52:59] +....[14:34:54] **** Pre-condition Violation @@ -18028,67 +18063,67 @@ . ---------------------------------------------------------------------- -Ran 5 tests in 0.017s +Ran 5 tests in 0.014s OK .... ---------------------------------------------------------------------- -Ran 4 tests in 0.017s +Ran 4 tests in 0.008s OK .. ---------------------------------------------------------------------- -Ran 2 tests in 0.012s +Ran 2 tests in 0.010s OK ...................... ---------------------------------------------------------------------- -Ran 22 tests in 0.036s +Ran 22 tests in 0.026s OK .....s.................ss ---------------------------------------------------------------------- -Ran 25 tests in 0.197s +Ran 25 tests in 0.161s OK (skipped=3) ..s ---------------------------------------------------------------------- -Ran 3 tests in 0.222s +Ran 3 tests in 0.136s OK (skipped=1) ................................... ---------------------------------------------------------------------- -Ran 35 tests in 1.057s +Ran 35 tests in 1.040s OK .... ---------------------------------------------------------------------- -Ran 4 tests in 0.020s +Ran 4 tests in 0.023s OK . ---------------------------------------------------------------------- -Ran 1 test in 0.015s +Ran 1 test in 0.012s OK ....... ---------------------------------------------------------------------- -Ran 7 tests in 0.059s +Ran 7 tests in 0.041s OK ... ---------------------------------------------------------------------- -Ran 3 tests in 0.076s +Ran 3 tests in 0.042s OK .ss.ss....... ---------------------------------------------------------------------- -Ran 13 tests in 1.715s +Ran 13 tests in 1.067s OK (skipped=4) -.........F.......[05:53:54] WARNING: More than one matching pattern found - picking one -[05:53:54] WARNING: More than one matching pattern found - picking one -.[05:53:54] WARNING: More than one matching pattern found - picking one +.........F.......[14:35:26] WARNING: More than one matching pattern found - picking one +[14:35:26] WARNING: More than one matching pattern found - picking one +.[14:35:26] WARNING: More than one matching pattern found - picking one .. ====================================================================== FAIL: testEnumerateStereoisomersRandomSamplingShouldBeDeterministicAndPortable (__main__.TestCase) @@ -18097,45 +18132,45 @@ File "/build/reproducible-path/rdkit-202009.4/rdkit/Chem/UnitTestMol3D.py", line 229, in testEnumerateStereoisomersRandomSamplingShouldBeDeterministicAndPortable self.assertEqual(smiles, expected) AssertionError: Items in the first set but not the second: -'C/C(F)=C/[C@@H](Cl)/C=C(/Br)[C@@H](N)I' 'C/C(F)=C/[C@@H](Cl)/C=C(\\Br)[C@@H](N)I' +'C/C(F)=C/[C@@H](Cl)/C=C(/Br)[C@@H](N)I' Items in the second set but not the first: 'C/C(F)=C\\[C@H](Cl)/C=C(\\Br)[C@H](N)I' 'C/C(F)=C/[C@@H](Cl)/C=C(\\Br)[C@H](N)I' ---------------------------------------------------------------------- -Ran 20 tests in 48.541s +Ran 20 tests in 26.991s FAILED (failures=1) -{'C/C(F)=C\\[C@H](C)Cl', 'C/C(F)=C/[C@H](C)Cl', 'C/C(F)=C/[C@@H](C)Cl', 'C/C(F)=C\\[C@@H](C)Cl'} -{'C/C(F)=C\\[C@H](C)Cl', 'C/C(F)=C/[C@H](C)Cl', 'C/C(F)=C/[C@@H](C)Cl', 'C/C(F)=C\\[C@@H](C)Cl'} -{'F[C@H](Cl)[C@H](F)Cl', 'F[C@@H](Cl)[C@@H](F)Cl', 'F[C@@H](Cl)[C@H](F)Cl'} +{'C/C(F)=C/[C@H](C)Cl', 'C/C(F)=C\\[C@@H](C)Cl', 'C/C(F)=C/[C@@H](C)Cl', 'C/C(F)=C\\[C@H](C)Cl'} +{'C/C(F)=C/[C@H](C)Cl', 'C/C(F)=C\\[C@@H](C)Cl', 'C/C(F)=C/[C@@H](C)Cl', 'C/C(F)=C\\[C@H](C)Cl'} +{'F[C@H](Cl)[C@H](F)Cl', 'F[C@@H](Cl)[C@H](F)Cl', 'F[C@@H](Cl)[C@@H](F)Cl'} ........ ---------------------------------------------------------------------- -Ran 8 tests in 0.117s +Ran 8 tests in 0.087s OK -....[05:53:58] WARNING: not removing hydrogen atom without neighbors -[05:53:58] WARNING: not removing hydrogen atom without neighbors -[05:53:58] WARNING: not removing hydrogen atom without neighbors +....[14:35:29] WARNING: not removing hydrogen atom without neighbors +[14:35:29] WARNING: not removing hydrogen atom without neighbors +[14:35:29] WARNING: not removing hydrogen atom without neighbors ......... ---------------------------------------------------------------------- -Ran 13 tests in 3.463s +Ran 13 tests in 2.376s OK .... ---------------------------------------------------------------------- -Ran 4 tests in 1.370s +Ran 4 tests in 0.976s OK ...... ---------------------------------------------------------------------- -Ran 6 tests in 0.338s +Ran 6 tests in 0.254s OK ..............s..s........ ---------------------------------------------------------------------- -Ran 26 tests in 4.143s +Ran 26 tests in 2.712s OK (skipped=2) ............./build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/rdkit/Chem/BRICS.py:291: DeprecationWarning: The *random* parameter to shuffle() has been deprecated @@ -18144,314 +18179,314 @@ /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/rdkit/Chem/BRICS.py:299: DeprecationWarning: The *random* parameter to shuffle() has been deprecated since Python 3.9 and will be removed in a subsequent version. random.shuffle(compats, random=random.random) -.[05:54:21] WARNING: More than one matching pattern found - picking one -[05:54:21] WARNING: More than one matching pattern found - picking one +.[14:35:42] WARNING: More than one matching pattern found - picking one +[14:35:42] WARNING: More than one matching pattern found - picking one ........... ---------------------------------------------------------------------- -Ran 25 tests in 14.209s +Ran 25 tests in 7.639s OK .. ---------------------------------------------------------------------- -Ran 2 tests in 0.057s +Ran 2 tests in 0.039s OK ..s... ---------------------------------------------------------------------- -Ran 6 tests in 0.881s +Ran 6 tests in 0.586s OK (skipped=1) -.[05:54:23] WARNING: not removing hydrogen atom without neighbors -.[05:54:23] WARNING: not removing hydrogen atom without neighbors -.[05:54:23] WARNING: no name column found on line 1 -[05:54:23] WARNING: no name column found on line 2 -[05:54:23] WARNING: no name column found on line 3 -[05:54:23] WARNING: no name column found on line 4 -[05:54:23] WARNING: no name column found on line 5 -[05:54:23] WARNING: no name column found on line 6 -[05:54:23] WARNING: no name column found on line 7 -[05:54:23] WARNING: no name column found on line 8 -[05:54:23] WARNING: no name column found on line 9 -[05:54:23] WARNING: no name column found on line 10 -[05:54:23] WARNING: no name column found on line 11 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line 30 -[05:54:23] WARNING: no name column found on line 31 -[05:54:23] WARNING: no name column found on line 32 -[05:54:23] WARNING: no name column found on line 33 -[05:54:23] WARNING: no name column found on line 34 -[05:54:23] WARNING: no name column found on line 35 -[05:54:23] WARNING: no name column found on line 36 -[05:54:23] WARNING: no name column found on line 37 -[05:54:23] WARNING: no name column found on line 38 -[05:54:23] WARNING: no name column found on line 39 -[05:54:23] WARNING: no name column found on line 40 -[05:54:23] WARNING: no name column found on line 41 -[05:54:23] WARNING: no name column found on line 42 -[05:54:23] WARNING: no name column found on line 43 -[05:54:23] WARNING: no name column found on line 44 -[05:54:23] WARNING: no name column found on line 45 -[05:54:23] WARNING: no name column found on line 46 -[05:54:23] WARNING: no name column found on line 47 -[05:54:23] WARNING: no name column found on line 48 -[05:54:23] WARNING: no name column found on line 49 -[05:54:23] WARNING: no name column found on line 50 -[05:54:23] WARNING: no name column found on line 51 -[05:54:23] WARNING: no name column found on line 52 -[05:54:23] WARNING: no name column found on line 53 -[05:54:23] WARNING: no name column found on line 54 -[05:54:23] WARNING: no name column found on line 55 -[05:54:23] WARNING: no name column found on line 56 -[05:54:23] WARNING: no name column found on line 57 -[05:54:23] WARNING: no name column found on line 58 -[05:54:23] WARNING: no name column found on line 59 -[05:54:23] WARNING: no name column found on line 60 -[05:54:23] WARNING: no name column found on line 61 -[05:54:23] WARNING: no name column found on line 62 -[05:54:23] WARNING: no name column found on line 63 -[05:54:23] WARNING: no name column found on line 64 -[05:54:23] WARNING: no name column found on line 65 -[05:54:23] WARNING: no name column found on line 66 -[05:54:23] WARNING: no name column found on line 67 -[05:54:23] WARNING: no name column found on line 68 -[05:54:23] WARNING: no name column found on line 69 -[05:54:23] WARNING: no name column found on line 70 -[05:54:23] WARNING: no name column found on line 71 -[05:54:23] WARNING: no name column found on line 72 -[05:54:23] WARNING: no name column found on line 73 -[05:54:23] WARNING: no name column found on line 74 -[05:54:23] WARNING: no name column found on line 75 -[05:54:23] WARNING: no name column found on line 76 -[05:54:23] WARNING: no name column found on line 77 -[05:54:23] WARNING: no name column found on line 78 -[05:54:23] WARNING: no name column found on line 79 -[05:54:23] WARNING: no name column found on line 80 -[05:54:23] WARNING: no name column found on line 81 -[05:54:23] WARNING: no name column found on line 82 -[05:54:23] WARNING: no name column found on line 83 -[05:54:23] WARNING: no name column found on line 84 -[05:54:23] WARNING: no name column found on line 85 -[05:54:23] WARNING: no name column found on line 86 -[05:54:23] WARNING: 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column found on line 161 -[05:54:23] WARNING: no name column found on line 162 -[05:54:23] WARNING: no name column found on line 163 -[05:54:23] WARNING: no name column found on line 164 -[05:54:23] WARNING: no name column found on line 165 -[05:54:23] WARNING: no name column found on line 166 -[05:54:23] WARNING: no name column found on line 167 -[05:54:23] WARNING: no name column found on line 168 -[05:54:23] WARNING: no name column found on line 169 -[05:54:23] WARNING: no name column found on line 170 -[05:54:23] WARNING: no name column found on line 171 -[05:54:23] WARNING: no name column found on line 172 -[05:54:23] WARNING: no name column found on line 173 -[05:54:23] WARNING: no name column found on line 174 -[05:54:23] WARNING: no name column found on line 175 -[05:54:23] WARNING: no name column found on line 176 -[05:54:23] WARNING: no name column found on line 177 -[05:54:23] WARNING: no name column found on line 178 -[05:54:23] WARNING: no name column found on line 179 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column found on line 198 -[05:54:23] WARNING: no name column found on line 199 -[05:54:23] WARNING: no name column found on line 200 -[05:54:23] WARNING: no name column found on line 201 -[05:54:23] WARNING: no name column found on line 202 -[05:54:23] WARNING: no name column found on line 203 -[05:54:23] WARNING: no name column found on line 204 -[05:54:23] WARNING: no name column found on line 205 -[05:54:23] WARNING: no name column found on line 206 -[05:54:23] WARNING: no name column found on line 207 -[05:54:23] WARNING: no name column found on line 208 -[05:54:23] WARNING: no name column found on line 209 -[05:54:23] WARNING: no name column found on line 210 -[05:54:23] WARNING: no name column found on line 211 -[05:54:23] WARNING: no name column found on line 212 -[05:54:23] WARNING: no name column found on line 213 -[05:54:23] WARNING: no name column found on line 214 -[05:54:23] WARNING: no name column found on line 215 -[05:54:23] WARNING: no name column found on line 216 +.[14:35:44] WARNING: not removing hydrogen atom without neighbors +.[14:35:44] WARNING: not removing hydrogen atom without neighbors +.[14:35:44] WARNING: no name column found on line 1 +[14:35:44] WARNING: no name column found on line 2 +[14:35:44] WARNING: no name column found on line 3 +[14:35:44] WARNING: no name column found on line 4 +[14:35:44] WARNING: no name column found on line 5 +[14:35:44] WARNING: no name column found on line 6 +[14:35:44] WARNING: no name column found on line 7 +[14:35:44] WARNING: no name column found on line 8 +[14:35:44] WARNING: no name column found on line 9 +[14:35:44] WARNING: no name column found on line 10 +[14:35:44] WARNING: no name column found on line 11 +[14:35:44] WARNING: no name column found on line 12 +[14:35:44] WARNING: no name column found on line 13 +[14:35:44] WARNING: no name column found on line 14 +[14:35:44] WARNING: no name column found on line 15 +[14:35:44] WARNING: no name column found on line 16 +[14:35:44] WARNING: no 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WARNING: no name column found on line 36 +[14:35:44] WARNING: no name column found on line 37 +[14:35:44] WARNING: no name column found on line 38 +[14:35:44] WARNING: no name column found on line 39 +[14:35:44] WARNING: no name column found on line 40 +[14:35:44] WARNING: no name column found on line 41 +[14:35:44] WARNING: no name column found on line 42 +[14:35:44] WARNING: no name column found on line 43 +[14:35:44] WARNING: no name column found on line 44 +[14:35:44] WARNING: no name column found on line 45 +[14:35:44] WARNING: no name column found on line 46 +[14:35:44] WARNING: no name column found on line 47 +[14:35:44] WARNING: no name column found on line 48 +[14:35:44] WARNING: no name column found on line 49 +[14:35:44] WARNING: no name column found on line 50 +[14:35:44] WARNING: no name column found on line 51 +[14:35:44] WARNING: no name column found on line 52 +[14:35:44] WARNING: no name column found on line 53 +[14:35:44] WARNING: no name column found on line 54 +[14:35:44] WARNING: no name column found on line 55 +[14:35:44] WARNING: no name column found on line 56 +[14:35:44] WARNING: no name column found on line 57 +[14:35:44] WARNING: no name column found on line 58 +[14:35:44] WARNING: no name column found on line 59 +[14:35:44] WARNING: no name column found on line 60 +[14:35:44] WARNING: no name column found on line 61 +[14:35:44] WARNING: no name column found on line 62 +[14:35:44] WARNING: no name column found on line 63 +[14:35:44] WARNING: no name column found on line 64 +[14:35:44] WARNING: no name column found on line 65 +[14:35:44] WARNING: no name column found on line 66 +[14:35:44] WARNING: no name column found on line 67 +[14:35:44] WARNING: no name column found on line 68 +[14:35:44] WARNING: no name column found on line 69 +[14:35:44] WARNING: no name column found on line 70 +[14:35:44] WARNING: no name column found on line 71 +[14:35:44] WARNING: no name column found on line 72 +[14:35:44] WARNING: no name column found on 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+[14:35:44] WARNING: no name column found on line 185 +[14:35:44] WARNING: no name column found on line 186 +[14:35:44] WARNING: no name column found on line 187 +[14:35:44] WARNING: no name column found on line 188 +[14:35:44] WARNING: no name column found on line 189 +[14:35:44] WARNING: no name column found on line 190 +[14:35:44] WARNING: no name column found on line 191 +[14:35:44] WARNING: no name column found on line 192 +[14:35:44] WARNING: no name column found on line 193 +[14:35:44] WARNING: no name column found on line 194 +[14:35:44] WARNING: no name column found on line 195 +[14:35:44] WARNING: no name column found on line 196 +[14:35:44] WARNING: no name column found on line 197 +[14:35:44] WARNING: no name column found on line 198 +[14:35:44] WARNING: no name column found on line 199 +[14:35:44] WARNING: no name column found on line 200 +[14:35:44] WARNING: no name column found on line 201 +[14:35:44] WARNING: no name column found on line 202 +[14:35:44] WARNING: no name column found on line 203 +[14:35:44] WARNING: no name column found on line 204 +[14:35:44] WARNING: no name column found on line 205 +[14:35:44] WARNING: no name column found on line 206 +[14:35:44] WARNING: no name column found on line 207 +[14:35:44] WARNING: no name column found on line 208 +[14:35:44] WARNING: no name column found on line 209 +[14:35:44] WARNING: no name column found on line 210 +[14:35:44] WARNING: no name column found on line 211 +[14:35:44] WARNING: no name column found on line 212 +[14:35:44] WARNING: no name column found on line 213 +[14:35:44] WARNING: no name column found on line 214 +[14:35:44] WARNING: no name column found on line 215 +[14:35:44] WARNING: no name column found on line 216 ...... ---------------------------------------------------------------------- -Ran 9 tests in 0.136s +Ran 9 tests in 0.094s OK .................. ---------------------------------------------------------------------- -Ran 18 tests in 0.865s +Ran 18 tests in 0.617s OK ... ---------------------------------------------------------------------- -Ran 3 tests in 0.103s +Ran 3 tests in 0.075s OK ........ ---------------------------------------------------------------------- -Ran 8 tests in 0.036s +Ran 8 tests in 0.024s OK .. ---------------------------------------------------------------------- -Ran 2 tests in 0.022s +Ran 2 tests in 0.014s OK .. ---------------------------------------------------------------------- -Ran 2 tests in 0.019s +Ran 2 tests in 0.012s OK . ---------------------------------------------------------------------- -Ran 1 test in 0.114s +Ran 1 test in 0.074s OK ........ ---------------------------------------------------------------------- -Ran 8 tests in 0.002s +Ran 8 tests in 0.001s OK ... ---------------------------------------------------------------------- -Ran 3 tests in 0.004s +Ran 3 tests in 0.003s OK ... ---------------------------------------------------------------------- -Ran 3 tests in 0.002s +Ran 3 tests in 0.001s OK .... ---------------------------------------------------------------------- -Ran 4 tests in 0.005s +Ran 4 tests in 0.003s OK ....... ---------------------------------------------------------------------- -Ran 7 tests in 0.020s +Ran 7 tests in 0.013s OK .... ---------------------------------------------------------------------- -Ran 4 tests in 0.021s +Ran 4 tests in 0.015s OK .... ---------------------------------------------------------------------- -Ran 4 tests in 3.205s +Ran 4 tests in 2.031s OK .......... ---------------------------------------------------------------------- -Ran 10 tests in 0.054s +Ran 10 tests in 0.035s OK . @@ -18461,7 +18496,7 @@ OK .......... ---------------------------------------------------------------------- -Ran 10 tests in 0.004s +Ran 10 tests in 0.003s OK ..../build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/rdkit/Chem/Randomize.py:29: DeprecationWarning: The *random* parameter to shuffle() has been deprecated @@ -18469,12 +18504,12 @@ random.shuffle(order, random=random.random) . ---------------------------------------------------------------------- -Ran 5 tests in 0.091s +Ran 5 tests in 0.053s OK ..................... ---------------------------------------------------------------------- -Ran 21 tests in 8.473s +Ran 21 tests in 4.750s OK mol_197 @@ -18488,7 +18523,7 @@ Ran 1 test in 0.000s OK -...[05:54:43] +...[14:35:56] **** Pre-condition Violation @@ -18499,56 +18534,56 @@ . ---------------------------------------------------------------------- -Ran 4 tests in 0.024s +Ran 4 tests in 0.015s OK .. ---------------------------------------------------------------------- -Ran 2 tests in 24.575s +Ran 2 tests in 14.242s OK .. ---------------------------------------------------------------------- -Ran 2 tests in 0.115s +Ran 2 tests in 0.084s OK ... ---------------------------------------------------------------------- -Ran 3 tests in 0.015s +Ran 3 tests in 0.009s OK .... ---------------------------------------------------------------------- -Ran 4 tests in 0.022s +Ran 4 tests in 0.016s OK -.....[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors -[05:55:09] WARNING: not removing hydrogen atom without neighbors +.....[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors +[14:36:12] WARNING: not removing hydrogen atom without neighbors ..... ---------------------------------------------------------------------- -Ran 10 tests in 0.364s +Ran 10 tests in 0.271s OK ssssss......s..... ---------------------------------------------------------------------- -Ran 18 tests in 0.236s +Ran 18 tests in 0.210s OK (skipped=7) s @@ -18558,28 +18593,28 @@ OK (skipped=1) .......... ---------------------------------------------------------------------- -Ran 10 tests in 0.758s +Ran 10 tests in 0.503s OK -..[05:55:12] SMARTS Parse Error: syntax error while parsing: boromicacid -[05:55:12] SMARTS Parse Error: Failed parsing SMARTS 'boromicacid' for input: 'boromicacid' -[05:55:12] SMARTS Parse Error: syntax error while parsing: carboxylicacid,acidchlroide -[05:55:12] SMARTS Parse Error: Failed parsing SMARTS 'carboxylicacid,acidchlroide' for input: 'carboxylicacid,acidchlroide' -[05:55:12] SMARTS Parse Error: syntax error while parsing: carboxyliccaid,acidchloride -[05:55:12] SMARTS Parse Error: Failed parsing SMARTS 'carboxyliccaid,acidchloride' for input: 'carboxyliccaid,acidchloride' -[05:55:12] reaction has no reactants -[05:55:12] reaction has no products -[05:55:12] initialization failed -[05:55:12] reaction has no reactants -[05:55:12] reaction has no products +..[14:36:14] SMARTS Parse Error: syntax error while parsing: boromicacid +[14:36:14] SMARTS Parse Error: Failed parsing SMARTS 'boromicacid' for input: 'boromicacid' +[14:36:14] SMARTS Parse Error: syntax error while parsing: carboxylicacid,acidchlroide +[14:36:14] SMARTS Parse Error: Failed parsing SMARTS 'carboxylicacid,acidchlroide' for input: 'carboxylicacid,acidchlroide' +[14:36:14] SMARTS Parse Error: syntax error while parsing: carboxyliccaid,acidchloride +[14:36:14] SMARTS Parse Error: Failed parsing SMARTS 'carboxyliccaid,acidchloride' for input: 'carboxyliccaid,acidchloride' +[14:36:14] reaction has no reactants +[14:36:14] reaction has no products +[14:36:14] initialization failed +[14:36:14] reaction has no reactants +[14:36:14] reaction has no products . ---------------------------------------------------------------------- -Ran 3 tests in 0.029s +Ran 3 tests in 0.021s OK .... ---------------------------------------------------------------------- -Ran 4 tests in 0.016s +Ran 4 tests in 0.010s OK !!! TEST FAILURE: python UnitTestMol3D.py {} @@ -18587,7 +18622,7 @@ 99% tests passed, 2 tests failed out of 190 -Total Test time (real) = 197.20 sec +Total Test time (real) = 102.37 sec The following tests FAILED: 128 - testFMCS (Child aborted) @@ -18595,7 +18630,7 @@ Errors while running CTest make[2]: *** [Makefile:128: test] Error 8 make[2]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -dh_auto_test: error: cd obj-i686-linux-gnu && make -j8 test ARGS\+=-j8 returned exit code 2 +dh_auto_test: error: cd obj-i686-linux-gnu && make -j15 test ARGS\+=-j15 returned exit code 2 make[1]: [debian/rules:126: override_dh_auto_test] Error 25 (ignored) make[1]: Leaving directory '/build/reproducible-path/rdkit-202009.4' fakeroot debian/rules binary @@ -18609,7 +18644,7 @@ make[1]: Entering directory '/build/reproducible-path/rdkit-202009.4' dh_auto_install dh_auto_install: warning: Compatibility levels before 10 are deprecated (level 9 in use) - cd obj-i686-linux-gnu && make -j8 install DESTDIR=/build/reproducible-path/rdkit-202009.4/debian/tmp AM_UPDATE_INFO_DIR=no + cd obj-i686-linux-gnu && make -j15 install DESTDIR=/build/reproducible-path/rdkit-202009.4/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/rdkit-202009.4 -B/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/CMakeFiles /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu//CMakeFiles/progress.marks @@ -18628,53 +18663,54 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 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inchi_support -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/build +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/RDStreams/CMakeFiles/RDStreams.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/RDStreams/CMakeFiles/RDStreams.dir/build.make Code/RDStreams/CMakeFiles/RDStreams.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/RDGeneral.dir/build'. +make[4]: Nothing to be done for 'Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/RDStreams/CMakeFiles/RDStreams.dir/build'. +make[4]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/RDGeneral.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 0%] Built target RDStreams [ 0%] Built target hc [ 1%] Built target RDGeneral make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/depend @@ -18683,914 +18719,913 @@ make -f Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build.make Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/depend make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/depend make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/depend -[ 1%] Built target RDStreams +make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/EigenSolvers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd 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/build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/RDGeneral /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/RDGeneral /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDGeneral/CMakeFiles/testDict.dir/DependInfo.cmake --color= +make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend +make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 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-make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build -make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/RDBoost/CMakeFiles/RDBoost.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 1%] Built target RDBoost -make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/depend -[ 1%] Built target testConcurrentQueue +make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend make[4]: Nothing to be done for 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'/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/Query/CMakeFiles/testQuery.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/build +make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build +[ 1%] Built target testConcurrentQueue make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/DataStructs.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/testRDValue.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/Query/CMakeFiles/testQuery.dir/build'. +make[4]: Nothing to be done for 'Code/Numerics/CMakeFiles/testMatrices.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build +[ 1%] Built target EigenSolvers +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/Catalogs/CMakeFiles/Catalogs.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build -[ 4%] Built target DataStructs +[ 1%] Built target testDict +[ 1%] Built target RDBoost +[ 1%] Built target testQuery +make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/RDBoost/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake --color= +[ 2%] Built target testRDValue +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake --color= +[ 4%] Built target testMatrices +[ 5%] Built target testMatCalc +[ 5%] Built target DataStructs +[ 5%] Built target Catalogs make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/depend make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/depend make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/depend -[ 5%] Built target testQuery -[ 5%] Built target testMatCalc make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend +make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend +make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend +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-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/RDGeometryLib.dir/DependInfo.cmake --color= +[ 6%] Built target SimDivPickers +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake --color= -make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend +make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend +make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataManip/MetricMatrixCalc/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake --color= -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 6%] Built target SimDivPickers -make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DataManip/MetricMatrixCalc/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build -[ 6%] Built target rdBase -make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend +make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/build -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/DependInfo.cmake --color= +make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testFPB.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testMultiFPB.dir/build'. +[ 6%] Built target rdBase make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build'. +make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 6%] Built target testFPB -make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend -[ 6%] Built target Clustering -[ 6%] Built target testMultiFPB -make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend -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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testDataStructs.dir/build'. +make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/SimDivPickers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake --color= -[ 7%] Built target testDataStructs -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/RDGeometryLib.dir/build'. +make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testDataStructs.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testMultiFPB.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build -[ 8%] Built target RDGeometryLib +[ 6%] Built target testFPB make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/depend -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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build'. +make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/RDGeometryLib.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 7%] Built target testDataStructs +[ 7%] Built target testMultiFPB +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build +[ 7%] Built target testSimDivPickers make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build +[ 7%] Built target InfoTheory +make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend +[ 7%] Built target pickersTestsCatch +make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/depend +[ 8%] Built target RDGeometryLib +make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/Data /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Data /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake --color= +make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend +make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend +make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend +[ 8%] Built target Clustering +make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/depend +make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend +make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/depend +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake --color= +make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Alignment /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake --color= -[ 8%] Built target testSimDivPickers -make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/DependInfo.cmake --color= -[ 8%] Built target InfoTheory -[ 8%] Built target pickersTestsCatch -make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend -make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/depend -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build'. +make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build'. +make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 8%] Built target rdMetricMatrixCalc +make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/build -make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/build -[ 8%] Built target geometryTestsCatch -make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build'. +make[4]: Nothing to be done for 'Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Geometry/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/testGrid.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 8%] Built target Alignment -make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/depend -[ 10%] Built target cDataStructs -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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build'. +make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/testTransforms.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/Numerics/CMakeFiles/testConrec.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Alignment /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/testTransforms.dir/build'. +make[4]: Nothing to be done for 'Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 8%] Built target geometryTestsCatch +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make 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--color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/build +make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build +[ 9%] Built target testConrec +[ 9%] Built target ChemicalFeatures +[ 11%] Built target rdSimDivPickers +[ 12%] Built target cDataStructs +make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend +[ 13%] Built target rdGeometry make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ML/InfoTheory/Wrap 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Nothing to be done for 'Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 13%] Built target testConrec -[ 13%] Built target testAlignment +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/GraphMol.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build +make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build make[4]: Entering 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-f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend +[ 17%] Built target testChemicalFeatures make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake --color= +make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/depend +make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/depend +[ 17%] Built target rdAlignment +make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake --color= -[ 17%] Built target ChemicalFeatures -make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build -[ 17%] Built target rdAlignment -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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/PartialCharges /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/ML/Data/CMakeFiles/cQuantize.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build -[ 17%] Built target cQuantize -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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake --color= -[ 17%] Built target Trajectory -make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend -[ 17%] Built target rdInfoTheory +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/DependInfo.cmake --color= -[ 17%] Built target SubstructMatch -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ChemicalFeatures/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build +make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build'. +make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 18%] Built target SmilesParse -make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend +make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.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-202009.4/obj-i686-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-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build -[ 19%] Built target PartialCharges +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build +[ 17%] Built target Trajectory +make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/depend -[ 20%] Built target MolCatalog -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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake --color= -[ 20%] Built target MolInterchange -make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix 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'/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 20%] Built target SLNParse -make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend +[ 18%] Built target PartialCharges make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build +make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build +make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/depend +[ 18%] Built target SubstructMatch make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/DependInfo.cmake --color= +[ 18%] Built target Subgraphs make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 18%] Built target MolInterchange +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build'. +make[4]: Nothing to be done for 'Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 23%] Built target CIPLabeler -[ 24%] Built target rdqueries -make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 24%] Built target rdtrajectory -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build'. +[ 19%] Built target SmilesParse +make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend +[ 19%] Built target rdChemicalFeatures make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend +[ 20%] Built target MolCatalog +make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend +make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend +make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/depend +make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend +make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/depend make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build +[ 21%] Built target rdqueries +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/DependInfo.cmake --color= -[ 24%] Built target MolTransforms -[ 24%] Built target Abbreviations -make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend -make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend -[ 24%] Built target rdChemicalFeatures make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/DependInfo.cmake --color= -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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/test-valgrind.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/DependInfo.cmake --color= +[ 21%] Built target SLNParse +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build +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-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build -[ 24%] Built target Optimizer -make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend +make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/DependInfo.cmake --color= -[ 24%] Built target graphmolqueryTest +make[4]: Nothing to be done for 'Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 21%] Built target Optimizer +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/DependInfo.cmake --color= +[ 21%] Built target rdtrajectory +make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/depend +[ 24%] Built target CIPLabeler +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/build -[ 24%] Built target Subgraphs -[ 24%] Built target ChemTransforms -make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/depend +make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build +[ 24%] Built target rdPartialCharges +make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/depend +[ 24%] Built target rdMolInterchange 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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/PartialCharges /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build'. +make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/test-valgrind.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build -[ 24%] Built target graphmolMemTest1 -[ 24%] Built target graphmolcpTest -make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/depend -make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/depend -[ 24%] Built target test-valgrind -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-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake --color= -cd 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/test-valgrind.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build -[ 24%] Built target testChemicalFeatures +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-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' [ 24%] Built target graphmolIterTest +[ 24%] Built target graphmolqueryTest +make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/depend +[ 25%] Built target smiTest2 make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build -[ 24%] Built target smaTest1 +[ 25%] Built target graphmolcpTest make -f Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/depend +make -f Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/depend +[ 25%] Built target test-valgrind +make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend +[ 25%] Built target graphmolMemTest1 +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake --color= +[ 25%] Built target smaTest1 make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/DependInfo.cmake --color= -[ 25%] Built target smiTest2 -make -f Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake --color= +make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/depend +[ 25%] Built target ChemTransforms +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/CIPLabeler/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/DependInfo.cmake --color= -[ 25%] Built target testPartialCharges +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake --color= -[ 25%] Built target rdPartialCharges -[ 25%] Built target MolChemicalFeatures -make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/depend -make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend +make[4]: Nothing to be done for 'Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build +[ 25%] Built target testSubgraphs1 +make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/depend +[ 26%] Built target testSubgraphs2 +make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && 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'/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build +make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 25%] Built target rdMolCatalog +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ForceField /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SLNParse/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 25%] Built target ReducedGraphs -[ 25%] Built target rdCIPLabeler +make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build +make -f Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build +[ 28%] Built target Fingerprints make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/depend -[ 25%] Built target rdMolInterchange -make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend -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-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake --color= -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build +make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build +make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build +[ 29%] Built target FilterCatalog +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 29%] Built target rdSLNParse -make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/depend -[ 30%] Built target testOptimizer -make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/depend -[ 31%] Built target rdAbbreviations -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 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'Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build +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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 32%] Built target testSubgraphs2 -make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/depend +[ 30%] Built target FragCatalog +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 30%] Built target ReducedGraphs +make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend +[ 31%] Built target testOptimizer +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/DependInfo.cmake --color= -[ 32%] Built target ShapeHelpers -make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake --color= +[ 31%] Built target rdCIPLabeler +make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend +[ 32%] Built target rdSLNParse +[ 32%] Built target testSLNParse +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake --color= +[ 32%] Built target rdMolCatalog +[ 32%] Built target MolChemicalFeatures make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 33%] Built target FilterCatalog -[ 35%] Built target Fingerprints make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/depend -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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/ForceField/CMakeFiles/ForceField.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake --color= -[ 38%] Built target ForceField -make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake --color= +[ 32%] Built target Abbreviations make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build'. +make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build +make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build 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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 39%] Built target rdMolTransforms make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 32%] Built target rdMHFPFingerprint make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build -make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend -[ 39%] Built target testSubgraphs1 -[ 41%] Built target rdchem -make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ReducedGraphs/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 35%] Built target testCIPLabeler +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 36%] Built target rdFingerprintGenerator +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/ForceField/CMakeFiles/ForceField.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build -[ 41%] Built target MolAlign -make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/depend +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build +[ 37%] Built target rdfiltercatalog +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 38%] Built target testReducedGraphs make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/DependInfo.cmake --color= -[ 42%] Built target testReducedGraphs -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/depend -[ 43%] Built target rdMolChemicalFeatures -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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build'. +[ 41%] Built target ForceField make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build -[ 44%] Built target FragCatalog +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/DependInfo.cmake --color= -make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake --color= +[ 42%] Built target rdMolChemicalFeatures +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build +[ 44%] Built target SubstructLibrary +[ 44%] Built target rdAbbreviations +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build +make[4]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build +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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build +make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build +[ 44%] Built target rdReducedGraphs +[ 46%] Built target rdchem make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 45%] Built target SubstructLibrary -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/External/CoordGen/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 45%] Built target rdMHFPFingerprint -[ 45%] Built target rdShapeHelpers -[ 47%] Built target rdFingerprintGenerator +[ 46%] Built target MolAlign +make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend [ 47%] Built target ForceFieldHelpers -make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend +make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/depend +[ 47%] Built target ShapeHelpers make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/depend make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend 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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DistGeom /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ForceField/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/External/CoordGen/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake --color= -[ 48%] Built target rdfiltercatalog -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake --color= +[ 47%] Built target rdSubstructLibrary make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build -make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/DependInfo.cmake --color= +[ 48%] Built target rdMolTransforms make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/build -[ 48%] Built target rdReducedGraphs -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build'. +make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 48%] Built target rdForceFieldHelpers make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/DistGeom/CMakeFiles/DistGeometry.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build [ 48%] Built target rdForceField -[ 48%] Built target rdSubstructLibrary +[ 48%] Built target rdForceFieldHelpers [ 49%] Built target DistGeometry make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/depend +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DistGeom /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/DistGeom/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build +[ 49%] Built target rdShapeHelpers make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/DistGeom/CMakeFiles/testDistGeom.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/build [ 49%] Built target Depictor make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend +[ 49%] Built target O3AAlign +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/DistGeom/CMakeFiles/testDistGeom.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake --color= -[ 50%] Built target testDistGeom -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 50%] Built target DistGeomHelpers make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build'. +make[4]: Nothing to be done for 'External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 50%] Built target testDistGeom +[ 50%] Built target DistGeomHelpers +[ 50%] Built target rdCoordGen make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build -[ 50%] Built target O3AAlign make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build [ 51%] Built target DistGeom +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 51%] Built target rdCoordGen make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' @@ -19607,69 +19642,51 @@ make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/External/CoordGen /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/depend cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ForceField/UFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/UFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/depend +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/depend +make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/depend +make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/ForceField/MMFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/build -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 56%] Built target graphmolAdjustQueryCatch -make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/hanoiTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 56%] Built target graphmolSGroupCatch -[ 56%] Built target chiralityTestsCatch -make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/depend -make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/testSGroup.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolTest1.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 57%] Built target graphmolTestsCatch -[ 57%] Built target graphmolTest1 -make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/depend -make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/molBundleTest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/build +make -f Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build +make -f Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/build @@ -19678,1031 +19695,1049 @@ make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build +make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/hanoiTest.dir/build'. +make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 57%] Built target hanoiTest -make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/depend -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/testSGroup.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 57%] Built target testSGroup -make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/depend -[ 57%] Built target graphmoltestPicklerGlobalSetting -[ 57%] Built target graphmoltestChirality -make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/molBundleTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/hanoiTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/DependInfo.cmake --color= -[ 58%] Built target graphmolMolOpsTest -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build -make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolTest1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'External/CoordGen/CMakeFiles/testCoordGen.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 55%] Built target chiralityTestsCatch +make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/testSGroup.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 58%] Built target testCoordGen -[ 59%] Built target testUFFForceField -make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/depend -make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/depend -[ 60%] Built target graphmoltestPickler -make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/depend +[ 55%] Built target graphmolSGroupCatch make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/molBundleTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake --color= +[ 55%] Built target hanoiTest +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/DependInfo.cmake --color= +make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/depend +[ 56%] Built target graphmolAdjustQueryCatch +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 61%] Built target molBundleTest -make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake --color= +[ 57%] Built target graphmolTestsCatch +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 62%] Built target cxsmilesTest -[ 63%] Built target resMolSupplierTest -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build +[ 57%] Built target graphmolTest1 +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build -make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/DependInfo.cmake --color= +[ 57%] Built target graphmoltestChirality +[ 57%] Built target testSGroup +make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/depend make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/depend +[ 58%] Built target molBundleTest +[ 58%] Built target graphmoltestPicklerGlobalSetting make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/DependInfo.cmake --color= -[ 63%] Built target testDepictor +[ 59%] Built target graphmoltestPickler make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake --color= -make -f Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/depend -[ 63%] Built target testMMFFForceField 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/DependInfo.cmake --color= +[ 60%] Built target graphmolMolOpsTest +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 63%] Built target smiTest1 -make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/depend +make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build'. +make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 63%] Built target testMol2ToMol -make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/depend +make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build -[ 63%] Built target smiTestCatch +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/DependInfo.cmake --color= -make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/depend +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 61%] Built target resMolSupplierTest make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/depend +[ 62%] Built target cxsmilesTest +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build -[ 65%] Built target fileParsersTest1 -[ 65%] Built target testPropertyLists +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/DependInfo.cmake --color= +[ 62%] Built target smiTest1 make -f Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/depend -make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build -[ 65%] Built target testMolSupplier -make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/depend -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build'. +[ 62%] Built target testDepictor make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 67%] Built target testGeneralFileReader -[ 67%] Built target testSequence +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/DependInfo.cmake --color= +[ 62%] Built target testMol2ToMol +make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/depend +make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/depend +[ 62%] Built target smiTestCatch make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/depend +[ 63%] Built target testPropertyLists +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/DependInfo.cmake --color= make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/depend make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/DependInfo.cmake --color= +[ 64%] Built target testSequence +make -f Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/depend +[ 64%] Built target testMolSupplier +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/DependInfo.cmake --color= +[ 65%] Built target fileParsersTest1 +[ 66%] Built target testMolWriter +[ 67%] Built target testGeneralFileReader +make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/depend +make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/depend +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/DependInfo.cmake --color= -[ 68%] Built target testMolWriter -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build -[ 68%] Built target testTplParser -[ 69%] Built target testExtendedStereoParsing -make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/depend -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build'. +make[4]: Nothing to be done for 'External/CoordGen/CMakeFiles/testCoordGen.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 69%] Built target substructTestCatch -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build'. +make[4]: Nothing to be done for 'Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 69%] Built target fileParsersCatchTest -[ 69%] Built target testMultithreadedMolSupplier -make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/depend -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 67%] Built target testCoordGen +make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/depend make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build -[ 69%] Built target testSubstructMatch -[ 69%] Built target chemTransformsTestCatch -make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/depend -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 68%] Built target testUFFForceField make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/DependInfo.cmake --color= +make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/depend make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build +make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/DependInfo.cmake --color= +[ 68%] Built target testMMFFForceField +make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend +[ 68%] Built target testTplParser make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 69%] Built target testChemTransforms 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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/DependInfo.cmake --color= +[ 69%] Built target testExtendedStereoParsing +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 69%] Built target filterCatalogTest -make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/depend -[ 69%] Built target testFragCatalog +[ 69%] Built target substructTestCatch 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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 69%] Built target fpTestCatch +[ 69%] Built target chemTransformsTestCatch +[ 69%] Built target testMultithreadedMolSupplier make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/depend -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build +make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend +[ 69%] Built target testSubstructMatch +make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/depend +[ 69%] Built target fileParsersCatchTest +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/DependInfo.cmake --color= +[ 69%] Built target testChemTransforms +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build +[ 69%] Built target filterCatalogTest +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/DependInfo.cmake --color= [ 69%] Built target rdfragcatalog -make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend +[ 69%] Built target testFragCatalog +make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/depend +make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/depend make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake --color= -[ 69%] Built target testFingerprints -[ 70%] Built target testFingerprintGenerators -make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/depend -make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build -[ 70%] Built target testMHFPFingerprint -make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/depend +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build +[ 69%] Built target fpTestCatch +make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/depend +[ 69%] Built target testMHFPFingerprint +[ 69%] Built target testFingerprints +make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/depend +make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/depend +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/DependInfo.cmake --color= +[ 70%] Built target testFingerprintGenerators make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/depend make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake --color= -[ 70%] Built target testMMFFForceFieldHelpersMultiThread -make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build +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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 71%] Built target testMMFFForceFieldHelpers -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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build +[ 70%] Built target testMMFFForceFieldHelpersMultiThread +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/DependInfo.cmake --color= -[ 71%] Built target testUFFForceFieldHelpers -make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/depend +make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build +[ 71%] Built target testMMFFForceFieldHelpers +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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 71%] Built target testUFFForceFieldHelpers +make -f Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/depend [ 71%] Built target testDistGeomHelpers make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/depend -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake --color= +make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build [ 71%] Built target testFeatures -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/DependInfo.cmake --color= -[ 73%] Built target Descriptors -make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/depend make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/DependInfo.cmake --color= +make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build -[ 74%] Built target testMolCatalog -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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/DependInfo.cmake --color= +[ 72%] Built target testMolCatalog make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build'. +make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 74%] Built target testMolTransforms -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/DependInfo.cmake --color= -[ 74%] Built target rdDistGeom +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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 74%] Built target MMPA -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/DependInfo.cmake --color= +make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build -[ 75%] Built target trajectoryTest -make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend -[ 76%] Built target FMCS -make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend +make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build +[ 72%] Built target MMPA +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend +make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend +[ 73%] Built target trajectoryTest make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/DependInfo.cmake --color= -make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build +make[4]: Nothing to be done for 'Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build -[ 76%] Built target testCrystalForceField -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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/DependInfo.cmake --color= -[ 76%] Built target substructLibraryTest -make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend +make[4]: Nothing to be done for 'Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build +[ 73%] Built target substructLibraryTest +[ 73%] Built target rdDistGeom +[ 74%] Built target FMCS +make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend +make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend +make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend +make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend +[ 75%] Built target molInterchangeTest1 make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 77%] Built target molInterchangeTest1 -make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Test /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Test /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake --color= +[ 75%] Built target testAbbreviations make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 77%] Built target testShapeHelpers -make -f Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/depend make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build +make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build'. +make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build +make[4]: Nothing to be done for 'Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 77%] Built target rdmolfiles +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 77%] Built target testAbbreviations -make -f Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/depend +[ 77%] Built target testMolTransforms +[ 79%] Built target Descriptors make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build +make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/depend make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build +make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 77%] Built target testCoulombMat -[ 79%] Built target rdmolfiles +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake --color= +[ 79%] Built target testCrystalForceField make -f Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/depend +[ 80%] Built target rdMMPA 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/DependInfo.cmake --color= -[ 79%] Built target testAUTOCORR3D +[ 80%] Built target testMMPA 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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build +make[4]: Nothing to be done for 'Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 80%] Built target testAUTOCORR2D +[ 80%] Built target rdFMCS make -f Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/depend -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build +[ 80%] Built target testFMCS +[ 80%] Built target testShapeHelpers +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/DependInfo.cmake --color= -[ 80%] Built target testDescriptors -make -f Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/depend +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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build +[ 80%] Built target FMCStest make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 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Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 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/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build -[ 83%] Built target testRDFcustom -[ 83%] Built target testRDF -make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build +[ 81%] Built target RGroupDecomposition 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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build -[ 83%] Built target testATF -make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 83%] Built target test3D -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/DependInfo.cmake --color= -make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/depend -[ 84%] Built target testBCUT -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build'. +make -f Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/depend +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 84%] Built target testPBF +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build -make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/depend make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake --color= -[ 84%] Built target testEEM -make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend -[ 84%] Built target testMORSE -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build +[ 81%] Built target testRDF +[ 81%] Built target testAUTOCORR3D +make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/depend +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 82%] Built target testAUTOCORR2D +make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/depend +[ 82%] Built target testRDFcustom make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/DependInfo.cmake --color= +make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/depend make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 84%] Built target testGETAWAY -make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend -[ 84%] Built target testWHIM +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake --color= -make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/FMCS/Test /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Test /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build -[ 84%] Built target rdMolDescriptors +[ 82%] Built target testATF make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake --color= +[ 82%] Built target testCoulombMat +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build -[ 84%] Built target testFMCS -make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 82%] Built target testDescriptors make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake --color= -[ 84%] Built target rdFMCS -make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build +make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend +[ 82%] Built target test3D make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 83%] Built target testBCUT make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MMPA/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build -[ 84%] Built target FMCStest -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake --color= +[ 83%] Built target testPBF make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build'. +[ 83%] Built target testMORSE +[ 83%] Built target testEEM +[ 83%] Built target testGETAWAY make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build -[ 84%] Built target rdMolAlign -make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend -[ 85%] Built target MolHash -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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build'. +make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build +make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build +[ 83%] Built target testWHIM make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/DependInfo.cmake --color= -[ 85%] Built target testMMPA +make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/depend -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 86%] Built target rdMMPA -make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build -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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build +[ 86%] Built target ChemReactions +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build -[ 86%] Built target testO3AAlign -[ 86%] Built target testMolAlign +make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend +make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend +make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend +make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 87%] Built target Deprotect -make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build -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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ChemReactions/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake --color= +[ 86%] Built target testRGroupDecomp +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 88%] Built target RGroupDecomposition -make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/DependInfo.cmake --color= +[ 87%] Built target MolHash make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 88%] Built target MolEnumerator -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build -make -f Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build.make Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend -[ 90%] Built target MolDraw2D +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/DependInfo.cmake --color= +[ 87%] Built target rdMolDescriptors 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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build +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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolHash/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build -[ 90%] Built target testReaction -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/DependInfo.cmake --color= -[ 90%] Built target testReactionFingerprints -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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build'. +make -f Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DependInfo.cmake --color= +make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build.make Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 90%] Built target rxnTestCatch -make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build -[ 90%] Built target testEnumeration -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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build.make Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build +[ 87%] Built target rdMolAlign make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 91%] Built target rdChemReactions -make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build -[ 91%] Built target molHashCatchTest -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake --color= -make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend -[ 91%] Built target rdMolHash -make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/depend +[ 88%] Built target Deprotect +make -f Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/depend +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 91%] Built target deprotectTest -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/DependInfo.cmake --color= +[ 88%] Built target testReactionFingerprints make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build'. +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DependInfo.cmake --color= +[ 88%] Built target testReaction +[ 88%] Built target rxnTestCatch +[ 88%] Built target molHashCatchTest +[ 88%] Built target rdMolHash +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 91%] Built target rdDeprotect -make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend +[ 88%] Built target MolEnumerator +make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend +make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/depend +[ 88%] Built target testEnumeration +[ 88%] Built target rdRGroupDecomposition make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 91%] Built target testRGroupDecomp -make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolEnumerator/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/DependInfo.cmake --color= +[ 89%] Built target rdChemReactions make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build +make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build +make -f Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake --color= -[ 94%] Built target MolStandardize -make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend +make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build -[ 94%] Built target rdMolEnumerator -make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend +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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 94%] Built target testMolEnumerator +[ 89%] Built target testMolAlign +[ 89%] Built target testO3AAlign +[ 92%] Built target MolStandardize +make -f Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend +make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend +make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend +make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/depend +make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/depend +make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/depend +make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend +make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/DependInfo.cmake --color= -[ 94%] Built target moldraw2DRxnTest1 -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-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 94%] Built target moldraw2DTestCatch -make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/depend +make[4]: Nothing to be done for 'Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build -[ 94%] Built target rdRGroupDecomposition -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/DependInfo.cmake --color= +[ 92%] Built target deprotectTest +[ 92%] Built target rdDeprotect +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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/DependInfo.cmake --color= +[ 92%] Built target testMolEnumerator +[ 92%] Built target rdMolEnumerator +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build +make -f Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build +[ 94%] Built target MolDraw2D +make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend +make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend +make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/depend +make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build +make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 94%] Built target rdmolops -make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/depend +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build'. +make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build'. +make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build'. +make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 95%] Built target molValidateTest -[ 95%] Built target molStandardizeSmallTest -[ 95%] Built target molStandardizeTest -make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend -make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake --color= +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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build -[ 96%] Built target rdMolDraw2D -[ 96%] Built target molChargeTest -[ 96%] Built target molNormalizeTest -make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/depend -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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/DependInfo.cmake --color= +make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build +[ 94%] Built target TautomerQuery +[ 94%] Built target molValidateTest make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 96%] Built target molTautomerTest +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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 94%] Built target molStandardizeSmallTest +make -f Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/depend +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-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build -[ 96%] Built target molFragmentTest -[ 96%] Built target molStandardizeCatchTest +[ 94%] Built target molChargeTest make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 94%] Built target molTautomerTest +[ 95%] Built target molStandardizeTest make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/DependInfo.cmake --color= +[ 95%] Built target molNormalizeTest make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/DependInfo.cmake --color= +[ 95%] Built target molFragmentTest make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -[ 97%] Built target moldraw2DTest1 -[ 98%] Built target rdMolStandardize -[ 99%] Built target ScaffoldNetwork +[ 95%] Built target molStandardizeCatchTest +[ 96%] Built target ScaffoldNetwork make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/depend make -f Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend -[ 99%] Built target TautomerQuery +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake --color= -make -f Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/depend -make -f Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/depend +make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/DependInfo.cmake --color= +cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build +[ 97%] Built target rdMolStandardize +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build +[ 97%] Built target moldraw2DRxnTest1 +[ 97%] Built target moldraw2DTestCatch +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -cd /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rdkit-202009.4 /build/reproducible-path/rdkit-202009.4/Code/GraphMol/TautomerQuery/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make -f Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build -make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-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-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 97%] Built target rdTautomerQuery make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build'. make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' +[ 98%] Built target tautomerQueryTestCatch +[ 99%] Built target rdMolDraw2D +[ 99%] Built target testScaffoldNetwork [ 99%] Built target rdScaffoldNetwork -[ 99%] Built target rdTautomerQuery -[100%] Built target tautomerQueryTestCatch -[100%] Built target testScaffoldNetwork +[ 99%] Built target rdmolops +[100%] Built target moldraw2DTest1 make[3]: Leaving directory '/build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/rdkit-202009.4/obj-i686-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall @@ -20713,1292 +20748,1292 @@ /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Resemblance.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/ClusterVis.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Butina.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Murtagh.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Clusters.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/murtagh_test.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/ClusterUtils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Standardize.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/entropy.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/BitClusterer.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/BitRank.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/files.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/PackageUtils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/Packager.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/ID3.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/BuildQuantTree.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/randomtest.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/DecTree.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/QuantTree.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/Forest.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/SigTree.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/TreeVis.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/TreeUtils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/BuildSigTree.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/CrossValidate.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/Tree.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/PruneTree.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/FindQuantBounds.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/DataUtils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/MLData.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/Transforms.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/Stats.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/SplitData.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/Quantize.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/CompositeRun.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/ClassificationModel.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/CrossValidate.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Scoring --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Scoring/Scoring.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Scoring/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Scoring/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/AnalyzeComposite.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/MLUtils --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/MLUtils/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/MLUtils/VoteImg.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/BuildComposite.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/GrowComposite.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/MatOps.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/KNNModel.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/DistFunctions.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/KNNClassificationModel.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/KNNRegressionModel.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/CrossValidate.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/EnrichPlot.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ScreenComposite.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/architecture.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/Network.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/Trainers.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/NetNode.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/ActFuncs.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/CrossValidate.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/MoleculeDescriptors.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/Descriptors.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/Parser.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/CompoundDescriptors.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/BayesComposite.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/Composite.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/AdjustComposite.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/SLT --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/SLT/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/SLT/Risk.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/SLT/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DistanceGeometry +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DistanceGeometry/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ForceField +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ForceField/__init__.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/SimDivFilters --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/SimDivFilters/__pycache__ -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/SimDivFilters/SimilarityPickers.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/SimDivFilters/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/RDConfig.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/SimDivFilters/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Numerics +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Numerics/__init__.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Geometry -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Geometry/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip/Metric +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip/Metric/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmilesOutput.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SDSupply.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmilesSupply.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmartsRemover.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmilesDupeFilter.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmartsMolFilter.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/DbMolSupply.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/demo.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/DbPickleSupplier.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Output.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Node.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Supply.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Transform.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Filter.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Avalon +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Avalon/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/six.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbInfo.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbReport.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbConnection.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/StorageUtils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbReport.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbModule.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbConnection.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbUtils.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbResultSet.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbModule.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Dbase/DbInfo.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/__init__.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/WX --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/WX/pidWxDc.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/WX/pidWX.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/WX/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/stringformat.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Qt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Qt/pidQt4.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Qt/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Qt/pidQt.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/ReportLab +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/ReportLab/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/ReportLab/pidReportLab.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/TK +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/TK/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/TK/pidTK.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Pyart +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Pyart/pidPyart.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Pyart/Fontmapping.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Pyart/__init__.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/psmetrics.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/pidPS.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/fontinfo.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/pidPS.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/latin1MetricsCache.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/psmetrics.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PS/__init__.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pidPIL.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-10.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-14.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-14.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-10.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-10.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-18.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-10.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-8.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-12.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-8.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-24.pbm -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-18.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-24.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-18.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-14.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/metrics.dat +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-12.pbm -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-24.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-10.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-12.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-10.pbm -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-24.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-24.pil -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-18.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-14.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-18.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-8.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-18.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-10.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-18.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-24.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-10.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-12.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-12.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-12.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-18.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-18.pbm -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-10.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-18.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-10.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-14.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-8.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-8.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-18.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-12.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-8.pil.1 -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-8.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/metrics.dat +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-24.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-10.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-12.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/removemedium.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-18.pil -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-8.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-14.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-8.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-8.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-8.pil.1 --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-12.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-12.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-12.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-14.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-24.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-24.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-24.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-24.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-8.pbm -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-10.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-24.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-14.pil -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-14.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-8.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-24.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-10.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-14.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-24.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-12.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-12.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-8.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-24.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-10.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-24.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-12.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-8.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-8.pil -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-10.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-14.pil -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-14.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-12.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-8.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-12.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-24.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-18.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-14.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-12.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-14.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-10.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-18.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-18.pil -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-14.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-14.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/removemedium.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-10.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-18.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-8.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-8.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-12.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-24.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-8.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-10.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-24.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-8.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-8.pbm -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-12.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-14.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-14.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-12.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-12.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-10.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-24.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-14.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-18.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-10.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-24.pbm -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-12.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-18.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-14.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-8.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-18.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-24.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-8.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-24.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-24.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-14.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-18.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-bold-10.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-18.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-10.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-12.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-8.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-14.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-14.pbm -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-10.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-12.pil --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-8.pil -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-18.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/times-18.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-12.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-8.pil -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-18.pbm --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pidPIL.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/stringformat.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/TK --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/TK/pidTK.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/TK/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-8.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/symbol-14.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-12.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/courier-bold-24.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-24.pil +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-10.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PIL/pilfonts/helvetica-bold-14.pbm +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/util +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/util/HTMLPiddler.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/util/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/pid.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/patches +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/patches/Imaging-1.1-fixplugin-path +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/patches/Imaging-1.1.1.diff +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/WX +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/WX/pidWxDc.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/WX/pidWX.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/WX/__init__.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfutils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfgeom.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfdoc.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pidPDF.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/__init__.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfmetrics.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfutils.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfgen.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/pagesizes.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfdoc.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/PDF/pdfgeom.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/colors.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/testallps.ps --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/testallps.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/__pycache__/pidtest.cpython-39.pyc --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/__pycache__/pstests.cpython-39.pyc --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/pidtest.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/pstests.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/patches --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/patches/Imaging-1.1.1.diff --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/patches/Imaging-1.1-fixplugin-path --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/README --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/examples --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/examples/formatted-strings.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/examples/tkCanvas-with-scrollbars.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/examples/tkCanvasPIL-with-scrollbars.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/README +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/pagesizes.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/utils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/pid.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/ReportLab --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/ReportLab/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/ReportLab/pidReportLab.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/util --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/util/HTMLPiddler.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/util/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Pyart --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Pyart/Fontmapping.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Pyart/pidPyart.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Pyart/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Qt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Qt/pidQt4.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Qt/pidQt.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/Qt/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/__pycache__ -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/SVG --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/SVG/pidSVG.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/SVG/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Numerics --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Numerics/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/SVG/pidSVG.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/examples +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/examples/tkCanvasPIL-with-scrollbars.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/examples/tkCanvas-with-scrollbars.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/examples/formatted-strings.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/testallps.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/testallps.ps +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/pstests.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/pidtest.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/__pycache__/pstests.cpython-39.pyc +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/sping/tests/__pycache__/pidtest.cpython-39.pyc +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/RDConfig.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/DSViewer.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FilterCatalog.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Sheridan.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Torsions.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Pairs.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Utils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FragmentMatcher.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Matcher.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Generate.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Utils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Gobbi_Pharm2D.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/LazyGenerator.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/SigFactory.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolCatalog.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Suppliers --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Suppliers/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Suppliers/MolSupplier.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Suppliers/__init__.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Suppliers/DbMolSupplier.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EnumerateHeterocycles.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fragments.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ShowMols.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolSurf.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Suppliers/__init__.py +-- Installing: 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/build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/FreeSans.ttf +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/MolDrawing.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/SimilarityMaps.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/spingCanvas.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/mplCanvas.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/cairoCanvas.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/qtCanvas.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/spingCanvas.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/IPythonConsole.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/canvasbase.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Draw/MolDrawing.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Descriptors3D.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Crippen.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FunctionalGroups.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMapUtils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMapParser.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMaps.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/__init__.py --- Installing: 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/build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features/ShowFeats.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features/FeatDirUtilsRD.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Graphs.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds +-- Installing: 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/build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Descriptors.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/PandasTools.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/__pycache__ -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/validations.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/standardize.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/charge.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/test_standardizer.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/resonance.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/normalize.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/tautomer.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/metal.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/standardize.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/charge.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/utils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/fragment.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/test_standardizer.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/errors.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/normalize.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/metal.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/validate.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/fragment.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Lipinski.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features/ShowFeats.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Features/FeatDirUtilsRD.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/SaltRemover.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FastSDMolSupplier.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Recap.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Pairs.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Torsions.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Sheridan.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AtomPairs/Utils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/BuildFragmentCatalog.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MCS.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemicalFeatures.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolCatalog.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatFinderCLI.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolStandardize/resonance.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMapParser.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMapPoint.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMapUtils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatMaps/FeatMaps.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/GraphDescriptors.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/__pycache__ -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/PyMol.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolDb --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolDb/Loader_sa.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolDb/Loader.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolDb/Loader_orig.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolDb/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolDb/FingerprintUtils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/TemplateAlign.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EnumerateStereoisomers.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolKey --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolKey/MolKey.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolKey/InchiInfo.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolKey/__init__.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Subshape +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Subshape/BuilderUtils.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Subshape/SubshapeObjects.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Subshape/SubshapeBuilder.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Subshape/testCombined.py +-- Installing: 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/build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/TemplateExpand.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/SDFToCSV.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/BulkTester.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/AlignDepict.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemUtils/DescriptorUtilities.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Matcher.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Gobbi_Pharm2D.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Generate.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/SigFactory.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/LazyGenerator.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm2D/Utils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/AllChem.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ReducedGraphs.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/EmbedLib.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/Pharmacophore.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/ExcludedVolume.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/EmbedLib.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/GraphDescriptors.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/PandasTools.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds/ScaffoldNetwork.ipynb --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds/MurckoScaffold.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Scaffolds/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/SATIS.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/Pharmacophore.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Pharm3D/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EnumerateStereoisomers.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ReducedGraphs.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EnumerateHeterocycles.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/DbFpSupplier.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/SimilarityScreener.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/FingerprintMols.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/MolSimilarity.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/ClusterMols.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/SimilarityScreener.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/MolSimilarity.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fingerprints/DbFpSupplier.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/BuildFragmentCatalog.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemicalForceFields.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/fmcs --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/fmcs/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/fmcs/fmcs.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/fmcs/fmcs +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Randomize.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/SaltRemover.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/Fingerprinter.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/__pycache__ -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/EState_VSA.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/EState.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/Fingerprinter.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/__init__.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/AtomTypes.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/EState.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/EState/__pycache__ -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MACCSkeys.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FragmentCatalog.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/TorsionFingerprints.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/RDLogger.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FunctionalGroups.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/QED.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ShowMols.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolKey +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolKey/MolKey.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolKey/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolKey/InchiInfo.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/ChemicalFeatures.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/MolSurf.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FeatFinderCLI.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/Fragments.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Chem/FilterCatalog.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/12h.gif --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/listutils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/fileutils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/chemutils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/test3.gif -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/cactvs.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/spiral.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/test1.gif --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/comhack.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/chemdraw.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/spiral.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/chemdraw_qax.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/test2.gif +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/comhack.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/12h.gif +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/test3.gif +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/listutils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/fileutils.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/retest.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip/Metric --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip/Metric/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataManip/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DistanceGeometry --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DistanceGeometry/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/utils/chemutils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/RDLogger.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/BitEnsembleDb.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/BitUtils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/BitEnsemble.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/TopNContainer.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/LazySignature.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/HierarchyVis.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/BitUtils.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/BitEnsemble.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/LazySignature.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/BitEnsembleDb.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/VectCollection.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/six.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/DataStructs/HierarchyVis.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/GrowComposite.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Scoring +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Scoring/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Scoring/Scoring.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Scoring/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/CrossValidate.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/ClassificationModel.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/NaiveBayes/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/AnalyzeComposite.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/SLT +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/SLT/Risk.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/SLT/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/SLT/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/PackageUtils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ModelPackage/Packager.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/MoleculeDescriptors.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/CompoundDescriptors.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/Descriptors.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Descriptors/Parser.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/Network.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/CrossValidate.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/architecture.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/Trainers.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/ActFuncs.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Neural/NetNode.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/Quantize.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/FindQuantBounds.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/Stats.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/MLData.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/DataUtils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/SplitData.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Data/Transforms.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/CompositeRun.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/BuildComposite.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/ClusterVis.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/ClusterUtils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Resemblance.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/murtagh_test.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Murtagh.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Standardize.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Butina.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Cluster/Clusters.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/ScreenComposite.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/CrossValidate.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/KNNModel.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/KNNRegressionModel.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/KNNClassificationModel.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/KNN/DistFunctions.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/MLUtils +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/MLUtils/VoteImg.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/MLUtils/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/files.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/MatOps.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/BayesComposite.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/Composite.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/Composite/AdjustComposite.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/BitRank.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/entropy.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/InfoTheory/BitClusterer.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/TreeUtils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/CrossValidate.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/DecTree.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/SigTree.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/PruneTree.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/QuantTree.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/Tree.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/BuildQuantTree.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/BuildSigTree.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/__pycache__ +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/ID3.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/Forest.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/randomtest.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/DecTree/TreeVis.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ML/EnrichPlot.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/RDRandom.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Avalon --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/Avalon/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmartsRemover.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/DbMolSupply.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/demo.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/__pycache__ --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmilesDupeFilter.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/DbPickleSupplier.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SDSupply.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmartsMolFilter.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmilesOutput.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/NodeLib/SmilesSupply.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Filter.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Output.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Transform.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Supply.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/VLib/Node.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/TestRunner.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ForceField --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/ForceField/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/python3/dist-packages/rdkit/__init__.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Fonts --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Fonts/amadeus_font_license.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Fonts/Amadeus.ttf --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Fonts/Telex-Regular.ttf --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Fonts/telex_font_license.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Salts.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib/RLewis_smarts.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib/patty_rules.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests/fps.1000.counts.pkl.gz --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests/mols.1000.pkl.gz --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests/bench2.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Crippen.txt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/struchk --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/struchk/checkfgs.chk -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/struchk/checkfgs.trn -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/struchk/checkfgs.opt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/BaseFeatures.fdef +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/struchk/checkfgs.chk +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains/test_data +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains/test_data/wehi_mols.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains/test_data/test_set3.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains/test_data/run_tests.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains/wehi_pains.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains/README.md -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/NCI -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/NCI/first_200.props.sdf --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/NCI/first_5K.smi -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/NCI/first_5k.tpsa.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/NCI/first_5K.smi -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/NCI/first_200.tpsa.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Functional_Group_Hierarchy.txt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/RDData.sqlt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/rddata.sql +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib/RLewis_smarts.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib/patty_rules.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests/fps.1000.counts.pkl.gz +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests/mols.1000.pkl.gz +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/SmartsLib/tests/bench2.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/DTDs +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/DTDs/RD_Dataset.dtd +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/DTDs/RD_Model.dtd +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/DTDs/validate.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/BaseFeatures.fdef -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/MolStandardize +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/MolStandardize/fragmentPatterns.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/MolStandardize/normalizations.txt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/MolStandardize/tautomerTransforms.in -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/MolStandardize/acid_base_pairs.txt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/MolStandardize/acid_base_pairs2.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/MolStandardize/fragmentPatterns.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/MolStandardize/normalizations.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Fonts +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Fonts/Amadeus.ttf +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Fonts/Telex-Regular.ttf +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Fonts/amadeus_font_license.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Fonts/telex_font_license.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/FunctionalGroups.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Salts.txt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/FragmentDescriptors.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/rddata.sql -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/RDTests.sqlt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Crippen.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/DTDs --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/DTDs/RD_Model.dtd --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/DTDs/RD_Dataset.dtd --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/DTDs/validate.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/FunctionalGroups.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Functional_Group_Hierarchy.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains/README.md --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains/wehi_pains.csv --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains/test_data --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains/test_data/test_set3.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains/test_data/run_tests.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Data/Pains/test_data/wehi_mols.csv -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_and_expand.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_cis_base.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_or_base.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_or2_base.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_trans_base.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_and2_base.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_cis_expand.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_abs_and_base.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_and2_expand.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_cis_base.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_and1_trans_expand.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/images/enhanced_stereo_or1_trans_base.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/CIPLabeling.md --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/Chem --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.ai --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.jpg --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.jpg --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.ai --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/Chem/FragmentCatalogs.html --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/SGroups.md --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/CodingStandards.md --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/EnhancedStereo.md --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/gsocGeneralFileReader.md --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/RD.css --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Notebooks --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-MutipleCores.ipynb --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-StereoChemTest.ipynb --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-RingSubstitution.ipynb --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Notebooks/compounds.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-GenericCores.ipynb --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-example-lactam.ipynb --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Notebooks/RGroupDecomposition-DummyCores.ipynb --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Notebooks/MolStandardize.ipynb --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Notebooks/FingerprintGenerators.ipynb -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/Supplementary_Text_jp.rst --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/RDKit_cookbook_jp.rst +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/An_overview_of_the_RDKit_jp.rst -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/introduction_jp.rst -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/Getting_Started_with_RDKit_in_Python_jp.rst --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/terminology_jp.rst --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/index.rst +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/Makefile +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/conf.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/The_RDKit_Book_jp.rst +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/terminology_jp.rst +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/RDKit_cookbook_jp.rst +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/Supplementary_Text_jp.rst +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/Installation_jp.rst -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/Backwards_incompatible_changes_jp.rst +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/index.rst -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/The_RDKit_database_cartridge_jp.rst --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/Installation_jp.rst --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/Makefile --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/An_overview_of_the_RDKit_jp.rst --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/conf.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_31.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_33.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_15.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_17.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_38.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_28.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_19.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_55.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_30.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_40.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_34.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_46.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_49.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_12.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_44.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_2.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_32.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_50.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_36.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_16.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_34.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_27.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_19.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_47.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_48.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_54.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_53.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_13.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_11.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_59.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_16.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_8.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_35.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_37.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_44.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_22.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_33.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_31.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_54.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_60.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_15.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_20.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_58.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_23.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_61.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_52.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_4.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_36.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_49.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_7.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_39.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_32.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_57.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_61.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_29.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_53.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_41.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_25.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_40.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_56.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_14.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_5.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_26.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_51.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_42.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_30.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_45.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_10.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_3.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_37.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_20.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_9.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_7.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_62.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_57.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_35.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_2.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_18.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_6.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_14.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_24.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_5.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_23.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_13.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_11.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_59.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_27.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_43.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_6.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_55.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_29.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_18.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_22.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_41.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_9.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_45.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_28.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_51.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_62.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_47.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_42.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_58.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_60.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_17.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_38.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_10.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_56.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_12.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_21.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_3.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book_jp/supple_images/jp_supple_4.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/ForceField +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/ForceField/ForceFieldTerms.new.odt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/ForceField/UFF Parameters.ods -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_CorrMat.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_Correlation.csv --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/README --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_Correlation.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_CorrMat.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_CorrMat.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/LeadLikeT80_Correlation.csv --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_CorrMat.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/ForceField --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/ForceField/UFF Parameters.ods --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/ForceField/ForceFieldTerms.new.odt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_Correlation.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/README +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/FragmentLikeT80_CorrMat.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Analysis/Descriptors/Correlations/DrugLikeT80_Correlation.csv -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_charges.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im4.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_highlights_2.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_fp3.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_32_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/mol_metadata1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_10.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/stereo_annotation.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im3.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_28_im1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_20_im1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/potential_stereo_double_bond3.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_11.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_labels_3.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_23_im1.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_10.jpg +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im2.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_7.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im5.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/potential_stereo_double_bond1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_29_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_22_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molF.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/indole1.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_6_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_13_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_highlights_1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_5.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/mfp2_bit872.svg --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im3.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_17_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_13_im1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im2.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_6.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molB.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_3_im0.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_22_im1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molE.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/parastereo_1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/rdk_bit1553.svg +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_8_im0.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_highlights_3.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/rdk_bit1553_2.svg +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/potential_stereo_double_bond2.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im2.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_19_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molA.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/indole1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_2_im1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_molgrid.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_11.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/potential_stereo_double_bond3.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molE.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_0.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_29_im0.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_2_im0.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_0_im1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_10.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_labels_2.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molD.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molF.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im4.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_1_im0.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_2_im1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_28_im1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/mfp2_bit872.svg +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_3.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_fp3.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/stereo_annotation.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_4.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im5.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_8.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_mol2.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_13_im1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_crippen.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im3.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_9.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_mol1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_2.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_molgrid_aligned.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_23_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/parastereo_1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_13_im0.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/substruct_search_parameters1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_highlights_2.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_30_im0.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_33_im2.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im6.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_32_im0.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/reaction1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_5.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im4.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/potential_stereo_double_bond2.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_0_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_33_im1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_28_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_mol2.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_3.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/rdk_bit1553_2.svg --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_8.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_22_im1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_1_im1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im6.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_23_im1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/parastereo_2.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_33_im2.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_fp1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_labels_3.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_6_im2.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/EnhancedStereoSSS_molG.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im5.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_17_im1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_3_im0.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im5.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_22_im0.png -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_annotation_1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/reaction1_highlight.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/substruct_search_parameters1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_33_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_4.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_rf.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_0_im1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_12.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_8_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/reaction1.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_21_im0.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/atom_highlights_1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_7_im3.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_17_im0.png +-- Installing: 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/build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/similarity_map_crippen.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_1_im0.png --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_30_im0.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/cdk2_molgrid.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/potential_stereo_double_bond1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/picture_1.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/RDKitCB_6_im2.png +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Book/images/parastereo_2.png +-- Installing: 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/build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/Chem +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.jpg +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/Chem/FragmentCatalogs.html +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.jpg +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.triangles.ai +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/Chem/Pharm2D.signatures.ai +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/gsocGeneralFileReader.md +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Docs/Code/EnhancedStereo.md -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ChiralPairs --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ChiralPairs/ChiralDescriptors.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ChiralPairs/README.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/NP_Score --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/NP_Score/publicnp.model.gz --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/NP_Score/npscorer.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/NP_Score/README --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/identifyReactants.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/__init__.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/utils.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/README.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/pzc --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/pzc/readme.md --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/pzc/p_con.html --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/pzc/p_con.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score/fpscores.pkl.gz --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score/data --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score/data/zim.100.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score/UnitTestSAScore.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score/README --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score/sascorer.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF/CreateFps.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF/DistancePredict.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF/AddLabels.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF/ClusterFps.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF/DistancePlot.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF/README.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/IFG --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/IFG/README --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/IFG/ifg.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/readme.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/atomcontrib.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/rdkit_tversky.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/cxn_tversky.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/data +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/final_fraggle_results.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/query.smi +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/ChEMBL_11265_actives.smi +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/fragmentation_tversky_out +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/query_fragmentation.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/fraggle.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/README.md -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/clustered_parse.tsv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/clustered.tsv -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/fastcluster.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/cdk2.smi +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/fp.tsv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/centroid.tsv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/README.md -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/sdf2smi.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/cdk2.sdf -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/converted.smi --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/fp.tsv --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/clustered.tsv --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/centroid.tsv --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/pbf.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/demo.cpp --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/PBFRDKit.cpp --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/PBFRDKit.h --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/testData --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/testData/egfr.sdf --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/testData/egfr.out --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/README --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/Makefile +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Fastcluster/testdata/cdk2.sdf +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/AtomAtomSimilarity +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/AtomAtomSimilarity/AtomAtomPathSimilarity.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/pzc +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/pzc/readme.md +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/pzc/p_con.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/pzc/p_con.html +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF/DistancePredict.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF/README.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF/DistancePlot.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF/ClusterFps.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF/CreateFps.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/LEF/AddLabels.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Glare +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Glare/README.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Glare/glare.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/README.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/identifyReactants.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/__init__.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/RxnRoleAssignment/utils.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/ConformerParser.h +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/CMakeLists.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/test.cpp +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/test_list.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/ConformerParser.cpp +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/rdConformerParser.cpp +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/CMakeLists.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/test_list.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/testConformerParser.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/cansmirk.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/search_mmp_db.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/README.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/mol_transform.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/test_list.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_maxratio.csv --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_subs.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_transfroms.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_fragmented.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_smi_output.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_default.csv --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_sym.csv --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample.smi +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_subs_smarts.txt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_sym_maxheavy.csv --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_subs_smart_output.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_smi.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_trans.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_subs.txt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_trans_output.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_smirks_mol_trans.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_trans_smarts.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_cansmirks.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_subs_smarts.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_transfroms.txt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_smirks.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_maxheavy.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_subs_smart_output.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample.smi -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mol_trans_output.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_subs_output.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_trans.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_maxheavy.csv -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_smiles_mol_trans.smi +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_fragmented.txt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_trans_smarts_output.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_default.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_maxratio.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_trans_smarts.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_input_smi.txt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/simple.smi +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_cansmirks.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_mmps_sym.csv +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_smirks_mol_trans.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_subs_output.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/data/sample_db_search_smi_output.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/cansmirk.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/rfrag.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/test_rfrag.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/mol_transform.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/test_list.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/search_mmp_db.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/create_mmp_db.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/README.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/rfrag.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/mmpa/indexing.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/MolVS --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/MolVS/molvs_cli.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score/README +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score/data +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score/data/zim.100.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score/fpscores.pkl.gz +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score/UnitTestSAScore.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/SA_Score/sascorer.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/CMakeLists.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/NP_Score +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/NP_Score/README +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/NP_Score/publicnp.model.gz +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/NP_Score/npscorer.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ChiralPairs +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ChiralPairs/README.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ChiralPairs/ChiralDescriptors.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/pbf.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/PBFRDKit.cpp +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/Makefile +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/README +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/PBFRDKit.h +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/testData +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/testData/egfr.sdf +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/testData/egfr.out +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/PBF/demo.cpp -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/M_Kossner --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/M_Kossner/BaseFeatures_DIP2_NoMicrospecies.fdef --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/M_Kossner/README -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/M_Kossner/Frames.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/CMakeLists.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Glare --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Glare/glare.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/Glare/README.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/data --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/query.smi --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/fragmentation_tversky_out --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/ChEMBL_11265_actives.smi --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/query_fragmentation.csv --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/data/final_fraggle_results.csv --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/fraggle.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/atomcontrib.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/readme.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/rdkit_tversky.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/fraggle/cxn_tversky.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/AtomAtomSimilarity --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/AtomAtomSimilarity/AtomAtomPathSimilarity.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/rdConformerParser.cpp --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/test_list.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/CMakeLists.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/Wrap/testConformerParser.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/ConformerParser.h --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/test.cpp --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/ConformerParser.cpp --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/test_list.py --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/ConformerParser/CMakeLists.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/M_Kossner/README +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/M_Kossner/BaseFeatures_DIP2_NoMicrospecies.fdef +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/IFG +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/IFG/ifg.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/IFG/README +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/MolVS +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Contrib/MolVS/molvs_cli.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/__pycache__ -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/SearchDb.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/TestDbCLI.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/moe_like.dsc -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/CreateDb.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr.sdf -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr/loadErrors.txt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr/Descriptors.sqlt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr/Compounds.sqlt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr/AtomPairs.sqlt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr/Fingerprints.sqlt --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr.2.smi --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/README +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr/loadErrors.txt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr/AtomPairs.sqlt +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr/Descriptors.sqlt -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/pubchem.200.sdf --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr_q1.mol --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr.sdf +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/README +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr.2.smi -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr.smi --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/SearchDb.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/DbCLI/testData/bzr_q1.mol +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Projects/__pycache__ -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Scripts --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Scripts/README.md --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Scripts/create_deb_packages.sh -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Scripts/test.sh -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Scripts/PythonFormat.py +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Scripts/README.md +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Scripts/create_deb_packages.sh -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/Scripts/FeatFinderCLI.py -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/README -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/share/RDKit/license.txt @@ -22037,12 +22072,12 @@ -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/include/rdkit/RDGeneral/test.h -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/include/rdkit/RDGeneral/ConcurrentQueue.h -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/include/rdkit/RDGeneral/hash --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/include/rdkit/RDGeneral/hash/extensions.hpp -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/include/rdkit/RDGeneral/hash/detail -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/include/rdkit/RDGeneral/hash/detail/float_functions.hpp -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/include/rdkit/RDGeneral/hash/detail/hash_float.hpp --- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/include/rdkit/RDGeneral/hash/hash.hpp +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/include/rdkit/RDGeneral/hash/extensions.hpp -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/include/rdkit/RDGeneral/hash/hash_fwd.hpp +-- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/include/rdkit/RDGeneral/hash/hash.hpp -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/libRDKitRDBoost.so.1.2020.09.4 -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/libRDKitRDBoost.so.1 -- Installing: /build/reproducible-path/rdkit-202009.4/debian/tmp/usr/lib/libRDKitRDBoost.so @@ -23179,12 +23214,12 @@ make[1]: Entering directory '/build/reproducible-path/rdkit-202009.4' dh_python3 -ppython3-rdkit I: dh_python3 fs:343: renaming rdBase.so to rdBase.cpython-39-i386-linux-gnu.so -I: dh_python3 fs:343: renaming Clustering.so to Clustering.cpython-39-i386-linux-gnu.so -I: dh_python3 fs:343: renaming rdInfoTheory.so to rdInfoTheory.cpython-39-i386-linux-gnu.so -I: dh_python3 fs:343: renaming cQuantize.so to cQuantize.cpython-39-i386-linux-gnu.so +I: dh_python3 fs:343: renaming DistGeom.so to DistGeom.cpython-39-i386-linux-gnu.so +I: dh_python3 fs:343: renaming rdForceField.so to rdForceField.cpython-39-i386-linux-gnu.so I: dh_python3 fs:343: renaming rdSimDivPickers.so to rdSimDivPickers.cpython-39-i386-linux-gnu.so -I: dh_python3 fs:343: renaming rdGeometry.so to rdGeometry.cpython-39-i386-linux-gnu.so I: dh_python3 fs:343: renaming rdAlignment.so to rdAlignment.cpython-39-i386-linux-gnu.so +I: dh_python3 fs:343: renaming rdGeometry.so to rdGeometry.cpython-39-i386-linux-gnu.so +I: dh_python3 fs:343: renaming rdMetricMatrixCalc.so to rdMetricMatrixCalc.cpython-39-i386-linux-gnu.so I: dh_python3 fs:343: renaming rdAbbreviations.so to rdAbbreviations.cpython-39-i386-linux-gnu.so I: dh_python3 fs:343: renaming rdCIPLabeler.so to rdCIPLabeler.cpython-39-i386-linux-gnu.so I: dh_python3 fs:343: renaming rdChemReactions.so to rdChemReactions.cpython-39-i386-linux-gnu.so @@ -23221,12 +23256,12 @@ I: dh_python3 fs:343: renaming rdqueries.so to rdqueries.cpython-39-i386-linux-gnu.so I: dh_python3 fs:343: renaming rdtrajectory.so to rdtrajectory.cpython-39-i386-linux-gnu.so I: dh_python3 fs:343: renaming rdMolDraw2D.so to rdMolDraw2D.cpython-39-i386-linux-gnu.so -I: dh_python3 fs:343: renaming rdMolStandardize.so to rdMolStandardize.cpython-39-i386-linux-gnu.so I: dh_python3 fs:343: renaming rdScaffoldNetwork.so to rdScaffoldNetwork.cpython-39-i386-linux-gnu.so -I: dh_python3 fs:343: renaming rdMetricMatrixCalc.so to rdMetricMatrixCalc.cpython-39-i386-linux-gnu.so -I: dh_python3 fs:343: renaming DistGeom.so to DistGeom.cpython-39-i386-linux-gnu.so +I: dh_python3 fs:343: renaming rdMolStandardize.so to rdMolStandardize.cpython-39-i386-linux-gnu.so I: dh_python3 fs:343: renaming cDataStructs.so to cDataStructs.cpython-39-i386-linux-gnu.so -I: dh_python3 fs:343: renaming rdForceField.so to rdForceField.cpython-39-i386-linux-gnu.so +I: dh_python3 fs:343: renaming cQuantize.so to cQuantize.cpython-39-i386-linux-gnu.so +I: dh_python3 fs:343: renaming Clustering.so to Clustering.cpython-39-i386-linux-gnu.so +I: dh_python3 fs:343: renaming rdInfoTheory.so to rdInfoTheory.cpython-39-i386-linux-gnu.so dh_numpy3 -ppython3-rdkit make[1]: Leaving directory '/build/reproducible-path/rdkit-202009.4' dh_installinit -O--buildsystem=cmake -O--parallel @@ -23265,27 +23300,27 @@ dh_installdeb -O--buildsystem=cmake -O--parallel dh_installdeb: warning: Compatibility levels before 10 are deprecated (level 9 in use) dh_gencontrol -O--buildsystem=cmake -O--parallel -dpkg-gencontrol: warning: Depends field of package rdkit-data: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: Depends field of package rdkit-doc: substitution variable ${shlibs:Depends} used, but is not defined -dpkg-gencontrol: warning: package rdkit-data: substitution variable ${python3:Depends} unused, but is defined +dpkg-gencontrol: warning: Depends field of package rdkit-data: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: Depends field of package librdkit-dev: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package postgresql-13-rdkit: substitution variable ${python3:Depends} unused, but is defined dpkg-gencontrol: warning: package librdkit1: substitution variable ${python3:Depends} unused, but is defined +dpkg-gencontrol: warning: package rdkit-data: substitution variable ${python3:Depends} unused, but is defined dpkg-gencontrol: warning: package librdkit-dev: substitution variable ${python3:Depends} unused, but is defined dpkg-gencontrol: warning: package postgresql-13-rdkit: substitution variable ${python3:Depends} unused, but is defined dpkg-gencontrol: warning: package librdkit1: substitution variable ${python3:Depends} unused, but is defined dpkg-gencontrol: warning: package rdkit-doc: substitution variable ${python3:Depends} unused, but is defined dh_md5sums -O--buildsystem=cmake -O--parallel dh_builddeb -O--buildsystem=cmake -O--parallel +dpkg-deb: building package 'rdkit-data' in '../rdkit-data_202009.4-1_all.deb'. dpkg-deb: building package 'librdkit1' in '../librdkit1_202009.4-1_i386.deb'. dpkg-deb: building package 'rdkit-doc' in '../rdkit-doc_202009.4-1_all.deb'. +dpkg-deb: building package 'postgresql-13-rdkit' in '../postgresql-13-rdkit_202009.4-1_i386.deb'. +dpkg-deb: building package 'python3-rdkit-dbgsym' in '../python3-rdkit-dbgsym_202009.4-1_i386.deb'. +dpkg-deb: building package 'librdkit1-dbgsym' in '../librdkit1-dbgsym_202009.4-1_i386.deb'. dpkg-deb: building package 'postgresql-13-rdkit-dbgsym' in '../postgresql-13-rdkit-dbgsym_202009.4-1_i386.deb'. dpkg-deb: building package 'librdkit-dev' in '../librdkit-dev_202009.4-1_i386.deb'. dpkg-deb: building package 'python3-rdkit' in '../python3-rdkit_202009.4-1_i386.deb'. -dpkg-deb: building package 'postgresql-13-rdkit' in '../postgresql-13-rdkit_202009.4-1_i386.deb'. -dpkg-deb: building package 'librdkit1-dbgsym' in '../librdkit1-dbgsym_202009.4-1_i386.deb'. -dpkg-deb: building package 'rdkit-data' in '../rdkit-data_202009.4-1_all.deb'. -dpkg-deb: building package 'python3-rdkit-dbgsym' in '../python3-rdkit-dbgsym_202009.4-1_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../rdkit_202009.4-1_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -23293,12 +23328,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/110048/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/110048/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/10559 and its subdirectories -I: Current time: Tue Jan 9 05:57:54 -12 2024 -I: pbuilder-time-stamp: 1704823074 +I: removing directory /srv/workspace/pbuilder/110048 and its subdirectories +I: Current time: Tue Feb 11 14:37:54 +14 2025 +I: pbuilder-time-stamp: 1739234274