Diff of the two buildlogs: -- --- b1/build.log 2021-07-28 22:08:22.375026578 +0000 +++ b2/build.log 2021-07-29 01:32:35.704448769 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Aug 30 14:49:35 -12 2022 -I: pbuilder-time-stamp: 1661914175 +I: Current time: Thu Jul 29 12:08:49 +14 2021 +I: pbuilder-time-stamp: 1627510129 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration @@ -16,8 +16,8 @@ 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.CUScN0Xa/trustedkeys.kbx': General error -gpgv: Signature made Sat Feb 20 22:42:16 2021 -12 +gpgv: keyblock resource '/tmp/dpkg-verify-sig.73lHkllK/trustedkeys.kbx': General error +gpgv: Signature made Mon Feb 22 00:42:16 2021 +14 gpgv: using RSA key 9CA877749FAB2E4FA96862ECDC686A27B43481B0 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./rdkit_202009.4-1.dsc @@ -35,135 +35,169 @@ dpkg-source: info: applying sphinx_compile_fixes.patch I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/15165/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/16409/tmp/hooks/D01_modify_environment starting +debug: Running on codethink10-arm64. +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 +Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' +Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' +Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' +Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by 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/16409/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/16409/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + 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]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.1.4(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=8' - DISTRIBUTION='' - HOME='/var/lib/jenkins' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/var/lib/jenkins + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - 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='15165' - PS1='# ' - PS2='> ' + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-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=16409 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/tmp.BliveqRUJC/pbuilderrc_kWOR --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.BliveqRUJC/b1 --logfile b1/build.log rdkit_202009.4-1.dsc' - SUDO_GID='117' - SUDO_UID='110' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - USERNAME='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.16:3128' + 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/tmp.BliveqRUJC/pbuilderrc_wd87 --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.BliveqRUJC/b2 --logfile b2/build.log --extrapackages usrmerge rdkit_202009.4-1.dsc' + SUDO_GID=117 + SUDO_UID=110 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + USERNAME=root + _='I: set' + http_proxy=http://192.168.101.16:3128 I: uname -a - Linux codethink13-arm64 4.15.0-151-generic #157-Ubuntu SMP Fri Jul 9 21:03:48 UTC 2021 aarch64 GNU/Linux + Linux i-capture-the-hostname 4.15.0-151-generic #157-Ubuntu SMP Fri Jul 9 21:03:48 UTC 2021 aarch64 GNU/Linux I: ls -l /bin total 5252 - -rwxr-xr-x 1 root root 1282512 Jun 21 2021 bash - -rwxr-xr-x 3 root root 34808 Jul 20 2020 bunzip2 - -rwxr-xr-x 3 root root 34808 Jul 20 2020 bzcat - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep - -rwxr-xr-x 3 root root 34808 Jul 20 2020 bzip2 - -rwxr-xr-x 1 root root 14264 Jul 20 2020 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore - -rwxr-xr-x 1 root root 39832 Sep 22 2020 cat - -rwxr-xr-x 1 root root 64512 Sep 22 2020 chgrp - -rwxr-xr-x 1 root root 60368 Sep 22 2020 chmod - -rwxr-xr-x 1 root root 64528 Sep 22 2020 chown - -rwxr-xr-x 1 root root 138896 Sep 22 2020 cp - -rwxr-xr-x 1 root root 129544 Dec 10 2020 dash - -rwxr-xr-x 1 root root 101384 Sep 22 2020 date - -rwxr-xr-x 1 root root 80984 Sep 22 2020 dd - -rwxr-xr-x 1 root root 89824 Sep 22 2020 df - -rwxr-xr-x 1 root root 143088 Sep 22 2020 dir - -rwxr-xr-x 1 root root 76152 Feb 7 2021 dmesg - lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname - -rwxr-xr-x 1 root root 35632 Sep 22 2020 echo - -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep - -rwxr-xr-x 1 root root 31512 Sep 22 2020 false - -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep - -rwxr-xr-x 1 root root 64856 Feb 7 2021 findmnt - -rwsr-xr-x 1 root root 34824 Feb 26 2021 fusermount - -rwxr-xr-x 1 root root 178400 Nov 9 2020 grep - -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip - -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe - -rwxr-xr-x 1 root root 93744 Mar 2 2021 gzip - -rwxr-xr-x 1 root root 18440 Nov 6 2019 hostname - -rwxr-xr-x 1 root root 68720 Sep 22 2020 ln - -rwxr-xr-x 1 root root 52720 Feb 7 2020 login - -rwxr-xr-x 1 root root 143088 Sep 22 2020 ls - -rwxr-xr-x 1 root root 161960 Feb 7 2021 lsblk - -rwxr-xr-x 1 root root 85200 Sep 22 2020 mkdir - -rwxr-xr-x 1 root root 68744 Sep 22 2020 mknod - -rwxr-xr-x 1 root root 43976 Sep 22 2020 mktemp - -rwxr-xr-x 1 root root 51368 Feb 7 2021 more - -rwsr-xr-x 1 root root 51360 Feb 7 2021 mount - -rwxr-xr-x 1 root root 14496 Feb 7 2021 mountpoint - -rwxr-xr-x 1 root root 134808 Sep 22 2020 mv - lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 18 2021 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 35720 Sep 22 2020 pwd - lrwxrwxrwx 1 root root 4 Jun 21 2021 rbash -> bash - -rwxr-xr-x 1 root root 43872 Sep 22 2020 readlink - -rwxr-xr-x 1 root root 68592 Sep 22 2020 rm - -rwxr-xr-x 1 root root 43880 Sep 22 2020 rmdir - -rwxr-xr-x 1 root root 19208 Sep 27 2020 run-parts - -rwxr-xr-x 1 root root 114016 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Aug 29 03:47 sh -> dash - -rwxr-xr-x 1 root root 35656 Sep 22 2020 sleep - -rwxr-xr-x 1 root root 72640 Sep 22 2020 stty - -rwsr-xr-x 1 root root 67776 Feb 7 2021 su - -rwxr-xr-x 1 root root 35672 Sep 22 2020 sync - -rwxr-xr-x 1 root root 535768 Feb 16 2021 tar - -rwxr-xr-x 1 root root 10568 Sep 27 2020 tempfile - -rwxr-xr-x 1 root root 89120 Sep 22 2020 touch - -rwxr-xr-x 1 root root 31512 Sep 22 2020 true - -rwxr-xr-x 1 root root 14264 Feb 26 2021 ulockmgr_server - -rwsr-xr-x 1 root root 30880 Feb 7 2021 umount - -rwxr-xr-x 1 root root 35640 Sep 22 2020 uname - -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress - -rwxr-xr-x 1 root root 143088 Sep 22 2020 vdir - -rwxr-xr-x 1 root root 59584 Feb 7 2021 wdctl - lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat - -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp - -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff - -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep - -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep - -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce - -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep - -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless - -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore - -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew -I: user script /srv/workspace/pbuilder/15165/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1282512 Jun 22 16:26 bash + -rwxr-xr-x 3 root root 34808 Jul 21 2020 bunzip2 + -rwxr-xr-x 3 root root 34808 Jul 21 2020 bzcat + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep + -rwxr-xr-x 3 root root 34808 Jul 21 2020 bzip2 + -rwxr-xr-x 1 root root 14264 Jul 21 2020 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore + -rwxr-xr-x 1 root root 39832 Sep 23 2020 cat + -rwxr-xr-x 1 root root 64512 Sep 23 2020 chgrp + -rwxr-xr-x 1 root root 60368 Sep 23 2020 chmod + -rwxr-xr-x 1 root root 64528 Sep 23 2020 chown + -rwxr-xr-x 1 root root 138896 Sep 23 2020 cp + -rwxr-xr-x 1 root root 129544 Dec 11 2020 dash + -rwxr-xr-x 1 root root 101384 Sep 23 2020 date + -rwxr-xr-x 1 root root 80984 Sep 23 2020 dd + -rwxr-xr-x 1 root root 89824 Sep 23 2020 df + -rwxr-xr-x 1 root root 143088 Sep 23 2020 dir + -rwxr-xr-x 1 root root 76152 Feb 8 04:38 dmesg + lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname + -rwxr-xr-x 1 root root 35632 Sep 23 2020 echo + -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep + -rwxr-xr-x 1 root root 31512 Sep 23 2020 false + -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep + -rwxr-xr-x 1 root root 64856 Feb 8 04:38 findmnt + -rwsr-xr-x 1 root root 34824 Feb 27 06:12 fusermount + -rwxr-xr-x 1 root root 178400 Nov 10 2020 grep + -rwxr-xr-x 2 root root 2346 Mar 3 13:30 gunzip + -rwxr-xr-x 1 root root 6376 Mar 3 13:30 gzexe + -rwxr-xr-x 1 root root 93744 Mar 3 13:30 gzip + -rwxr-xr-x 1 root root 18440 Nov 8 2019 hostname + -rwxr-xr-x 1 root root 68720 Sep 23 2020 ln + -rwxr-xr-x 1 root root 52720 Feb 8 2020 login + -rwxr-xr-x 1 root root 143088 Sep 23 2020 ls + -rwxr-xr-x 1 root root 161960 Feb 8 04:38 lsblk + -rwxr-xr-x 1 root root 85200 Sep 23 2020 mkdir + -rwxr-xr-x 1 root root 68744 Sep 23 2020 mknod + -rwxr-xr-x 1 root root 43976 Sep 23 2020 mktemp + -rwxr-xr-x 1 root root 51368 Feb 8 04:38 more + -rwsr-xr-x 1 root root 51360 Feb 8 04:38 mount + -rwxr-xr-x 1 root root 14496 Feb 8 04:38 mountpoint + -rwxr-xr-x 1 root root 134808 Sep 23 2020 mv + lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 19 05:38 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 35720 Sep 23 2020 pwd + lrwxrwxrwx 1 root root 4 Jun 22 16:26 rbash -> bash + -rwxr-xr-x 1 root root 43872 Sep 23 2020 readlink + -rwxr-xr-x 1 root root 68592 Sep 23 2020 rm + -rwxr-xr-x 1 root root 43880 Sep 23 2020 rmdir + -rwxr-xr-x 1 root root 19208 Sep 28 2020 run-parts + -rwxr-xr-x 1 root root 114016 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Jul 29 12:09 sh -> bash + lrwxrwxrwx 1 root root 4 Jul 27 23:25 sh.distrib -> dash + -rwxr-xr-x 1 root root 35656 Sep 23 2020 sleep + -rwxr-xr-x 1 root root 72640 Sep 23 2020 stty + -rwsr-xr-x 1 root root 67776 Feb 8 04:38 su + -rwxr-xr-x 1 root root 35672 Sep 23 2020 sync + -rwxr-xr-x 1 root root 535768 Feb 17 23:55 tar + -rwxr-xr-x 1 root root 10568 Sep 28 2020 tempfile + -rwxr-xr-x 1 root root 89120 Sep 23 2020 touch + -rwxr-xr-x 1 root root 31512 Sep 23 2020 true + -rwxr-xr-x 1 root root 14264 Feb 27 06:12 ulockmgr_server + -rwsr-xr-x 1 root root 30880 Feb 8 04:38 umount + -rwxr-xr-x 1 root root 35640 Sep 23 2020 uname + -rwxr-xr-x 2 root root 2346 Mar 3 13:30 uncompress + -rwxr-xr-x 1 root root 143088 Sep 23 2020 vdir + -rwxr-xr-x 1 root root 59584 Feb 8 04:38 wdctl + lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Mar 3 13:30 zcat + -rwxr-xr-x 1 root root 1678 Mar 3 13:30 zcmp + -rwxr-xr-x 1 root root 5880 Mar 3 13:30 zdiff + -rwxr-xr-x 1 root root 29 Mar 3 13:30 zegrep + -rwxr-xr-x 1 root root 29 Mar 3 13:30 zfgrep + -rwxr-xr-x 1 root root 2081 Mar 3 13:30 zforce + -rwxr-xr-x 1 root root 7585 Mar 3 13:30 zgrep + -rwxr-xr-x 1 root root 2206 Mar 3 13:30 zless + -rwxr-xr-x 1 root root 1842 Mar 3 13:30 zmore + -rwxr-xr-x 1 root root 4553 Mar 3 13:30 znew +I: user script /srv/workspace/pbuilder/16409/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -553,7 +587,7 @@ Get: 283 http://deb.debian.org/debian bullseye/main arm64 texlive-latex-recommended all 2020.20210202-3 [14.5 MB] Get: 284 http://deb.debian.org/debian bullseye/main arm64 texlive-pictures all 2020.20210202-3 [6743 kB] Get: 285 http://deb.debian.org/debian bullseye/main arm64 texlive-latex-extra all 2020.20210202-3 [13.7 MB] -Fetched 291 MB in 6s (44.9 MB/s) +Fetched 291 MB in 7s (43.3 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 ... 19646 files and directories currently installed.) @@ -1791,9 +1825,42 @@ Building dependency tree... Reading state information... fakeroot is already the newest version (1.25.3-1.1). -0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +The following additional packages will be installed: + libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl +The following NEW packages will be installed: + libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl usrmerge +0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. +Need to get 59.5 kB of archives. +After this operation, 157 kB of additional disk space will be used. +Get:1 http://deb.debian.org/debian bullseye/main arm64 libnumber-compare-perl all 0.03-1.1 [6956 B] +Get:2 http://deb.debian.org/debian bullseye/main arm64 libtext-glob-perl all 0.11-1 [8888 B] +Get:3 http://deb.debian.org/debian bullseye/main arm64 libfile-find-rule-perl all 0.34-1 [30.6 kB] +Get:4 http://deb.debian.org/debian bullseye/main arm64 usrmerge all 25 [13.0 kB] +debconf: delaying package configuration, since apt-utils is not installed +Fetched 59.5 kB in 0s (1091 kB/s) +Selecting previously unselected package libnumber-compare-perl. +(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 ... 74128 files and directories currently installed.) +Preparing to unpack .../libnumber-compare-perl_0.03-1.1_all.deb ... +Unpacking libnumber-compare-perl (0.03-1.1) ... +Selecting previously unselected package libtext-glob-perl. +Preparing to unpack .../libtext-glob-perl_0.11-1_all.deb ... +Unpacking libtext-glob-perl (0.11-1) ... +Selecting previously unselected package libfile-find-rule-perl. +Preparing to unpack .../libfile-find-rule-perl_0.34-1_all.deb ... +Unpacking libfile-find-rule-perl (0.34-1) ... +Selecting previously unselected package usrmerge. +Preparing to unpack .../archives/usrmerge_25_all.deb ... +Unpacking usrmerge (25) ... +Setting up libtext-glob-perl (0.11-1) ... +Setting up libnumber-compare-perl (0.03-1.1) ... +Setting up libfile-find-rule-perl (0.34-1) ... +Setting up usrmerge (25) ... +The system has been successfully converted. +Processing triggers for man-db (2.9.4-2) ... +Not building database; man-db/auto-update is not 'true'. I: Building the package -I: Running cd /build/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 +hostname: Temporary failure in name resolution +I: Running cd /build/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 @@ -2074,90 +2141,90 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/INCHI-API /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/INCHI-API /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/INCHI-API/CMakeFiles/inchi_support.dir/DependInfo.cmake --color= make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/depend -make -f External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build.make External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/coordgen_support.dir/DependInfo.cmake --color= +make -f External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build.make External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/RingFamilies /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/RingFamilies /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/coordgen_support.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/coordgen_support.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/coordgen_support.dir/depend.internal". -Scanning dependencies of target coordgen_support +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/INCHI-API/CMakeFiles/inchi_support.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/INCHI-API/CMakeFiles/inchi_support.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/INCHI-API/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/INCHI-API/CMakeFiles/inchi_support.dir/depend.internal". +Scanning dependencies of target inchi_support Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/catch/CMakeFiles/catch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/catch/CMakeFiles/catch.dir/depend.internal". 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'/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/INCHI-API && /usr/bin/cmake -E copy /build/rdkit-202009.4/External/INCHI-API/python/noinchi.py /build/rdkit-202009.4/rdkit/Chem/inchi.py make -f External/catch/CMakeFiles/catch.dir/build.make External/catch/CMakeFiles/catch.dir/build -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/RingFamilies/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/depend.internal". -Scanning dependencies of target ringdecomposerlib_support -Dependee 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-I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/RDGeneral/utils.cpp +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDStreams && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RDSTREAMS_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 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-DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/RDGeneral/Invariant.cpp -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/RDGeneral/types.cpp -[ 1%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hc.c.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cc -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dhc_EXPORTS -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -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 -fPIC -o CMakeFiles/hc.dir/hc.c.o -c /build/rdkit-202009.4/Code/ML/Cluster/Murtagh/hc.c +[ 0%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/types.cpp.o +[ 0%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/versions.cpp.o +[ 0%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/utils.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/RDGeneral/utils.cpp [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDLog.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/RDGeneral/types.cpp cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/RDLog.cpp.o -c /build/rdkit-202009.4/Code/RDGeneral/RDLog.cpp [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/LocaleSwitcher.cpp.o -[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/versions.cpp.o +[ 1%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hc.c.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cc -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dhc_EXPORTS -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -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 -fPIC -o CMakeFiles/hc.dir/hc.c.o -c /build/rdkit-202009.4/Code/ML/Cluster/Murtagh/hc.c cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/RDGeneral/LocaleSwitcher.cpp cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeneral_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGENERAL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/RDGeneral/versions.cpp -[ 1%] Building CXX object Code/RDStreams/CMakeFiles/RDStreams.dir/streams.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDStreams && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RDSTREAMS_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/RDStreams/streams.cpp [ 1%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hcdriver.c.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cc -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_HC_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -Dhc_EXPORTS -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -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 -fPIC -o CMakeFiles/hc.dir/hcdriver.c.o -c /build/rdkit-202009.4/Code/ML/Cluster/Murtagh/hcdriver.c [ 1%] Linking C shared library ../../../../lib/libRDKithc.so @@ -2182,93 +2249,95 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake --color= make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/depend +make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/EigenSolvers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake --color= -make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/RDBoost /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake --color= 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[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/RDGeneral /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/DependInfo.cmake --color= +make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/RDGeneral /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/DependInfo.cmake --color= make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/depend +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/depend.internal". make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/RDGeneral /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testDict.dir/DependInfo.cmake --color= make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Catalogs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/depend.internal". +Scanning dependencies of target RDBoost Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/depend.internal". -Scanning dependencies of target EigenSolvers +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Catalogs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build +make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/depend.internal". +Scanning dependencies of target EigenSolvers Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testRDValue.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testDict.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testDict.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testDict.dir/depend.internal". -Scanning dependencies of target testMatrices -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/depend.internal". -Scanning dependencies of target testRDValue -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -Scanning dependencies of target Catalogs Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/depend.internal". Scanning dependencies of target testDict +Scanning dependencies of target testRDValue make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build -Scanning dependencies of target RDBoost -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build +Scanning dependencies of target DataStructs Scanning dependencies of target testConcurrentQueue -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 1%] Building CXX object Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DEigenSolvers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_EIGENSOLVERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Numerics/EigenSolvers/PowerEigenSolver.cpp +make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build.make Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/depend.internal". make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 1%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/Catalog.cpp.o -Scanning dependencies of target DataStructs -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Catalogs/Catalog.cpp +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/depend.internal". +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build +Scanning dependencies of target Catalogs +Scanning dependencies of target testMatrices make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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 -[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o -[ 1%] Building CXX object Code/Numerics/CMakeFiles/testMatrices.dir/testMatrices.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/RDGeneral/testDict.cpp -[ 1%] Building CXX object Code/RDBoost/CMakeFiles/RDBoost.dir/Wrap.cpp.o make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/testRDValue.dir/testRDValue.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/RDGeneral/testConcurrentQueue.cpp -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/Numerics/testMatrices.cpp +make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 1%] Building CXX object Code/RDBoost/CMakeFiles/RDBoost.dir/Wrap.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDBoost_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDBOOST_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/RDBoost/Wrap.cpp -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/RDGeneral/testRDValue.cpp +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 1%] Building CXX object Code/RDGeneral/CMakeFiles/testDict.dir/testDict.cpp.o +[ 1%] Building CXX object Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/RDGeneral/testDict.cpp +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DEigenSolvers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_EIGENSOLVERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Numerics/EigenSolvers/PowerEigenSolver.cpp [ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitVect.cpp.o +[ 2%] Building CXX object Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/testConcurrentQueue.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/BitVect.cpp.o -c /build/rdkit-202009.4/Code/DataStructs/BitVect.cpp +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/RDGeneral/testConcurrentQueue.cpp +[ 2%] Building CXX object Code/RDGeneral/CMakeFiles/testRDValue.dir/testRDValue.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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-DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/Numerics/testMatrices.cpp +[ 2%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/Catalog.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD 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-fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +[ 2%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/SparseBitVect.cpp make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 2%] Built target testConcurrentQueue make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/depend @@ -2282,8 +2351,27 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 2%] Building CXX object Code/Query/CMakeFiles/testQuery.dir/test.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Query && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK 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-DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/SparseBitVect.cpp +[ 2%] Linking CXX shared library ../../../lib/libRDKitEigenSolvers.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +[ 2%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogParams.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Catalogs/CatalogParams.cpp +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 2%] Built target EigenSolvers +make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataManip/MetricMatrixCalc /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend.internal". +Scanning dependencies of target testMatCalc +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 2%] Building CXX object Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED 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-DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Catalogs/CatalogEntry.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, @@ -2305,53 +2393,32 @@ /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/libRDKitEigenSolvers.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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 -[ 2%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogParams.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCatalogs_EXPORTS -DRDKIT_CATALOGS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Catalogs/CatalogParams.cpp -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 2%] Built target EigenSolvers -make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataManip/MetricMatrixCalc /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake --color= -Dependee 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Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend.internal". -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' Scanning dependencies of target SimDivPickers make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build -[ 2%] Built target RDBoost make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 2%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/SimDivPickers/DistPicker.cpp +[ 2%] Linking CXX shared library ../../lib/libRDKitRDBoost.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 2%] Built target RDBoost make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/RDBoost/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake --color= -[ 2%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/SimDivPickers/DistPicker.cpp Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend.internal". 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Scanning dependencies of target rdBase @@ -2376,17 +2443,17 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 3%] Building CXX object Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/Clustering.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DClustering_EXPORTS -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Clustering.dir/Clustering.cpp.o -c /build/rdkit-202009.4/Code/ML/Cluster/Murtagh/Clustering.cpp +[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o [ 3%] Linking CXX executable testMatrices +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/ExplicitBitVect.cpp.o -c /build/rdkit-202009.4/Code/DataStructs/ExplicitBitVect.cpp cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' [ 3%] Built target testMatrices +[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/Utils.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Utils.cpp [ 3%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/SimDivPickers/MaxMinPicker.cpp -[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/ExplicitBitVect.cpp.o -c /build/rdkit-202009.4/Code/DataStructs/ExplicitBitVect.cpp -[ 3%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SIMDIVPICKERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/SimDivPickers/HierarchicalClusterPicker.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, @@ -2405,11 +2472,13 @@ /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( | ^~~~~~~~~~~~~~~~~~~~ +[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/base64.cpp.o /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/Utils.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Utils.cpp +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/base64.cpp +[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitOps.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -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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CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /build/rdkit-202009.4/Code/SimDivPickers/HierarchicalClusterPicker.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, @@ -2442,16 +2513,35 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/base64.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra 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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/DataStructs.dir/DiscreteDistMat.cpp.o -c /build/rdkit-202009.4/Code/DataStructs/DiscreteDistMat.cpp +[ 3%] Linking CXX executable testQuery +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 3%] Built target testQuery +[ 3%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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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module ../../../../rdkit/ML/Cluster/Clustering.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so -lpthread +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 5%] Built target Clustering +[ 6%] Linking CXX shared library ../../lib/libRDKitSimDivPickers.so cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 4%] Built target SimDivPickers +[ 6%] Built target SimDivPickers make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/SimDivPickers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/DependInfo.cmake --color= @@ -2461,41 +2551,18 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f 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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/testSimDivPickers.dir/testPickers.cpp.o -c /build/rdkit-202009.4/Code/SimDivPickers/testPickers.cpp -[ 4%] Linking CXX shared module ../../../../rdkit/ML/Cluster/Clustering.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/DiscreteDistMat.cpp -[ 4%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/DiscreteValueVect.cpp -[ 4%] Linking CXX executable testQuery -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 4%] Built target testQuery -[ 5%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/FPBReader.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/FPBReader.cpp -[ 6%] Linking CXX executable testRDValue -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +[ 6%] Linking CXX executable testDict +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDict.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 6%] Built target testRDValue -[ 6%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/MultiFPBReader.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/MultiFPBReader.cpp +[ 6%] Built target testDict [ 6%] Linking CXX executable testSimDivPickers cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSimDivPickers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' [ 6%] Built target testSimDivPickers -[ 6%] Linking CXX executable testDict -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDict.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 6%] Built target testDict [ 6%] Linking CXX shared library ../../lib/libRDKitDataStructs.so cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/DataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 @@ -2515,68 +2582,68 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-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/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataStructs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.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/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataManip/MetricMatrixCalc/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake --color= make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/SimDivPickers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/depend.internal". -Scanning dependencies 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Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend.internal". -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend.internal". +Scanning dependencies of target testMultiFPB +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend.internal". -Scanning dependencies of target testMultiFPB +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/depend.internal". make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build +Scanning dependencies of target pickersTestsCatch +Scanning dependencies of target testFPB +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build Scanning dependencies of target RDGeometryLib -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend.internal". make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/build -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend.internal". +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +Scanning dependencies of target testDataStructs +make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 6%] Building CXX object Code/DataStructs/CMakeFiles/testFPB.dir/testFPB.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -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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-Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -c /build/rdkit-202009.4/Code/DataStructs/testDatastructs.cpp [ 6%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/point.cpp.o -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Geometry/point.cpp make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -Scanning dependencies of target cDataStructs -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build +[ 6%] Building CXX object Code/DataStructs/CMakeFiles/testFPB.dir/testFPB.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/DataStructs/testFPB.cpp [ 6%] Building CXX object Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd 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CMakeFiles/pickersTestsCatch.dir/catch_tests.cpp.o -c /build/rdkit-202009.4/Code/SimDivPickers/catch_tests.cpp [ 7%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DataStructs.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Wrap/DataStructs.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, @@ -2627,18 +2694,9 @@ cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 7%] Built target rdMetricMatrixCalc [ 7%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Geometry/Transform3D.cpp -[ 7%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Geometry/UniformGrid3D.cpp -[ 7%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Wrap/DiscreteValueVect.cpp -[ 7%] Linking CXX executable testMultiFPB -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultiFPB.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 7%] Built target testMultiFPB +[ 7%] Built target rdMetricMatrixCalc make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/SimDivPickers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake --color= @@ -2650,6 +2708,8 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 7%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/SimDivPickers/Wrap/MaxMinPicker.cpp +[ 7%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Wrap/DiscreteValueVect.cpp [ 7%] Linking CXX executable testFPB cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFPB.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 @@ -2666,8 +2726,36 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 7%] Building CXX object Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DInfoTheory_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_INFOTHEORY_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ML/InfoTheory/InfoBitRanker.cpp -[ 8%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Geometry/GridUtils.cpp +[ 7%] Linking CXX executable testMultiFPB +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultiFPB.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 7%] Built target testMultiFPB +[ 7%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Wrap/SparseIntVect.cpp +[ 7%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Geometry/UniformGrid3D.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/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/rdkit-202009.4/Code/SimDivPickers/Wrap/MaxMinPicker.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 /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, @@ -2689,8 +2777,6 @@ /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/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/SimDivPickers/Wrap/LeaderPicker.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, @@ -2705,49 +2791,34 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/SimDivPickers/Wrap/MaxMinPicker.cpp:12: + from /build/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%] Linking CXX shared library ../../lib/libRDKitRDGeometryLib.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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 -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol.dir/depend.internal". -[ 8%] Linking CXX shared library ../../../lib/libRDKitInfoTheory.so +[ 7%] Linking CXX shared library ../../../lib/libRDKitInfoTheory.so cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_link_script CMakeFiles/InfoTheory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 -Scanning dependencies of target GraphMol -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 8%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Atom.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Atom.cpp cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 8%] Built target InfoTheory -make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend +[ 7%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend.internal". -Scanning dependencies of target Alignment +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ML/InfoTheory/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend.internal". +Scanning dependencies of target rdInfoTheory make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build +make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 8%] Building CXX object Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment && /usr/bin/c++ -DAlignment_EXPORTS -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_ALIGNMENT_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Numerics/Alignment/AlignPoints.cpp -[ 8%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Wrap/SparseIntVect.cpp +[ 7%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp +[ 7%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Wrap/wrap_SparseBV.cpp +[ 8%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Geometry/GridUtils.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, @@ -2762,30 +2833,15 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/SimDivPickers/Wrap/LeaderPicker.cpp:12: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 8%] Linking CXX shared library ../../../lib/libRDKitAlignment.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 8%] Built target Alignment -make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend.internal". -Scanning dependencies of target geometryTestsCatch -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 8%] Building CXX object Code/Geometry/CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/Geometry/catch_tests.cpp +[ 8%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/LeaderPicker.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/SimDivPickers/Wrap/LeaderPicker.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, @@ -2799,34 +2855,49 @@ 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/DataStructs/Wrap/SparseIntVect.cpp:11: + from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 8%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp +[ 8%] Linking CXX shared library ../../lib/libRDKitRDGeometryLib.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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 +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 8%] Built target RDGeometryLib +make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ML/Data /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/depend.internal". +Scanning dependencies of target cQuantize +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 8%] Building CXX object Code/ML/Data/CMakeFiles/cQuantize.dir/cQuantize.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ML/Data/cQuantize.cpp [ 9%] Linking CXX executable testDataStructs cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' [ 9%] Built target testDataStructs -make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend +make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/depend.internal". -Scanning dependencies of target testGrid +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend.internal". +Scanning dependencies of target ChemicalFeatures make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/build +make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 9%] Building CXX object Code/Geometry/CMakeFiles/testGrid.dir/testGrid.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/Geometry/testGrid.cpp -[ 10%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp +[ 9%] Building CXX object Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemicalFeatures_EXPORTS -DRDKIT_CHEMICALFEATURES_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ChemicalFeatures/FreeChemicalFeature.cpp +[ 9%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -2841,15 +2912,15 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp:13: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryAtom.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/QueryAtom.cpp +[ 9%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Wrap/wrap_ExplicitBV.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, @@ -2864,65 +2935,30 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp:12: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryBond.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/QueryBond.cpp -[ 10%] Linking CXX shared module ../../../rdkit/SimDivFilters/rdSimDivPickers.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSimDivPickers.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 10%] Built target rdSimDivPickers -make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/depend.internal". -Scanning dependencies of target testTransforms -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 10%] Building CXX object Code/Geometry/CMakeFiles/testTransforms.dir/testTransforms.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/Geometry/testTransforms.cpp -[ 10%] Linking CXX executable testGrid -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 10%] Built target testGrid -make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend.internal". -Scanning dependencies of target rdGeometry -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 10%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Geometry/Wrap/Point.cpp -[ 10%] Linking CXX shared module ../../../rdkit/rdBase.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdBase.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so -lpthread +[ 9%] Linking CXX shared library ../../lib/libRDKitChemicalFeatures.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemicalFeatures.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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 make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 10%] Built target rdBase -make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/depend +[ 9%] Built target ChemicalFeatures +make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/depend.internal". -Scanning dependencies of target testConrec +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol.dir/depend.internal". +Scanning dependencies of target GraphMol make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/build +make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 10%] Building CXX object Code/Numerics/CMakeFiles/testConrec.dir/testConrec.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/Numerics/testConrec.cpp -[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Bond.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Bond.cpp +[ 9%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Atom.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Atom.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, @@ -2937,53 +2973,29 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/Geometry/Wrap/Point.cpp:11: + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 10%] Linking CXX executable testTransforms -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 10%] Built target testTransforms -make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend.internal". -Scanning dependencies of target testAlignment -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 10%] Building CXX object Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/testAlignment.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/Numerics/Alignment/testAlignment.cpp -[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolOps.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolOps.cpp -[ 10%] Linking CXX executable testAlignment -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAlignment.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 -[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindRings.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FindRings.cpp +[ 9%] Linking CXX shared module ../../../rdkit/ML/Data/cQuantize.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data && /usr/bin/cmake -E cmake_link_script CMakeFiles/cQuantize.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so -lpthread make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 10%] Built target testAlignment -make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/depend +[ 9%] Built target cQuantize +make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Alignment/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/depend.internal". -Scanning dependencies of target rdAlignment +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend.internal". +Scanning dependencies of target Alignment make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build +make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 10%] Building CXX object Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdAlignment_EXPORTS -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o -c /build/rdkit-202009.4/Code/Numerics/Alignment/Wrap/rdAlignment.cpp -/build/rdkit-202009.4/Code/GraphMol/FindRings.cpp: In function 'void RDKit::MolOps::findRingFamilies(const RDKit::ROMol&)': -/build/rdkit-202009.4/Code/GraphMol/FindRings.cpp:1367:36: warning: unused parameter 'mol' [-Wunused-parameter] - 1367 | void findRingFamilies(const ROMol &mol) { - | ~~~~~~~~~~~~~^~~ +[ 9%] Building CXX object Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment && /usr/bin/c++ -DAlignment_EXPORTS -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_ALIGNMENT_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Numerics/Alignment/AlignPoints.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, @@ -2997,18 +3009,38 @@ 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/Numerics/Alignment/Wrap/rdAlignment.cpp:12: + from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/rdkit-202009.4/Code/DataStructs/Wrap/wrap_ExplicitBV.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/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Geometry/Wrap/UniformGrid3D.cpp -[ 10%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Wrap/wrap_SparseBV.cpp +[ 9%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp +[ 9%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp +[ 9%] Linking CXX shared library ../../../lib/libRDKitAlignment.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 9%] Built target Alignment +make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend.internal". +Scanning dependencies of target geometryTestsCatch +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 9%] Building CXX object Code/Geometry/CMakeFiles/geometryTestsCatch.dir/catch_tests.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/Geometry/catch_tests.cpp +[ 9%] Linking CXX shared module ../../../rdkit/rdBase.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdBase.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so -lpthread 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, @@ -3023,31 +3055,28 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/Geometry/Wrap/UniformGrid3D.cpp:12: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 10%] Linking CXX shared module ../../../../rdkit/Numerics/rdAlignment.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 10%] Built target rdAlignment -make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend +[ 9%] Built target rdBase +make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ML/InfoTheory/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend.internal". -Scanning dependencies of target rdInfoTheory +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/depend.internal". +Scanning dependencies of target testGrid make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build +make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 10%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp -[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ROMol.cpp +[ 9%] Building CXX object Code/Geometry/CMakeFiles/testGrid.dir/testGrid.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/Geometry/testGrid.cpp +[ 9%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, @@ -3062,13 +3091,17 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/DataStructs/Wrap/wrap_SparseBV.cpp:11: + from /build/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%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp +[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryAtom.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/QueryAtom.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, @@ -3083,37 +3116,45 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp:12: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 11%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/RWMol.cpp -[ 11%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Wrap/wrap_ExplicitBV.cpp -[ 11%] Linking CXX executable pickersTestsCatch -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +[ 10%] Linking CXX shared module ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdInfoTheory.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 11%] Built target pickersTestsCatch -make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/depend +[ 10%] Built target rdInfoTheory +make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ML/Data /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/depend.internal". -Scanning dependencies of target cQuantize +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/depend.internal". +Scanning dependencies of target testTransforms make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/build +make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 11%] Building CXX object Code/ML/Data/CMakeFiles/cQuantize.dir/cQuantize.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ML/Data/cQuantize.cpp -[ 12%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Geometry/Wrap/rdGeometry.cpp -[ 12%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.cpp +[ 10%] Building CXX object Code/Geometry/CMakeFiles/testTransforms.dir/testTransforms.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/Geometry/testTransforms.cpp +[ 10%] Linking CXX executable testGrid +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 10%] Built target testGrid +make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend.internal". +Scanning dependencies of target rdGeometry +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 10%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -3128,13 +3169,31 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/DataStructs/Wrap/wrap_ExplicitBV.cpp:11: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 10%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Wrap/wrap_FPB.cpp +[ 10%] Linking CXX shared module ../../../rdkit/SimDivFilters/rdSimDivPickers.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSimDivPickers.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 10%] Built target rdSimDivPickers +make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/depend.internal". +Scanning dependencies of target testConrec +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 10%] Building CXX object Code/Numerics/CMakeFiles/testConrec.dir/testConrec.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/Numerics/testConrec.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, @@ -3148,14 +3207,19 @@ 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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/ML/Data/cQuantize.cpp:11: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/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/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/QueryBond.cpp +[ 10%] Linking CXX executable testTransforms +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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, @@ -3169,16 +3233,47 @@ 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.cpp:11: + from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/PeriodicTable.cpp +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 10%] Built target testTransforms +make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend.internal". +Scanning dependencies of target testAlignment +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 10%] Building CXX object Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/testAlignment.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/Numerics/Alignment/testAlignment.cpp +[ 10%] Linking CXX executable testAlignment +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAlignment.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 10%] Built target testAlignment +make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Alignment/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/depend.internal". +Scanning dependencies of target rdAlignment +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 10%] Building CXX object Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdAlignment_EXPORTS -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o -c /build/rdkit-202009.4/Code/Numerics/Alignment/Wrap/rdAlignment.cpp +[ 10%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Bond.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Bond.cpp +[ 10%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -3192,55 +3287,34 @@ 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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/Geometry/Wrap/rdGeometry.cpp:11: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/rdkit-202009.4/Code/Numerics/Alignment/Wrap/rdAlignment.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 12%] Linking CXX shared module ../../../rdkit/Geometry/rdGeometry.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/atomic_data.cpp +[ 10%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Geometry/Wrap/UniformGrid3D.cpp +[ 11%] Building CXX object Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Geometry/Wrap/rdGeometry.cpp +[ 11%] Linking CXX executable pickersTestsCatch +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 12%] Built target rdGeometry -make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend +[ 11%] Built target pickersTestsCatch +make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= -Dependee 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"/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend.internal". +Scanning dependencies of target testChemicalFeatures make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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 directory 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../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so -lpthread -[ 12%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Wrap/wrap_BitOps.cpp -[ 12%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 12%] Built target cQuantize -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/QueryOps.cpp -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolPickler.cpp -[ 12%] Linking CXX shared library ../../lib/libRDKitChemicalFeatures.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemicalFeatures.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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 -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 12%] Built target ChemicalFeatures -[ 12%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_FPB.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DataStructs/Wrap/wrap_FPB.cpp -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Canon.cpp +[ 11%] Building CXX object Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/ChemicalFeatures/testChemicalFeatures.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, @@ -3254,14 +3328,30 @@ 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/DataStructs/Wrap/wrap_BitOps.cpp:11: + from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 12%] Linking CXX shared module ../../../rdkit/DataStructs/cDataStructs.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolOps.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolOps.cpp +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 12%] Built target cDataStructs +[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindRings.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FindRings.cpp +[ 12%] Linking CXX shared module ../../../../rdkit/Numerics/rdAlignment.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 12%] Built target rdAlignment +[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ROMol.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, @@ -3275,18 +3365,14 @@ 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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp:11: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/rdkit-202009.4/Code/Geometry/Wrap/UniformGrid3D.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/rdkit-202009.4/Code/GraphMol/MolPickler.cpp: In function 'void RDKit::streamReadPositiveChar(std::istream&, char&, int)': -/build/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:70:11: warning: comparison is always false due to limited range of data type [-Wtype-limits] - 70 | if (res < 0) { - | ~~~~^~~ 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, @@ -3301,13 +3387,49 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/DataStructs/Wrap/wrap_FPB.cpp:10: + from /build/rdkit-202009.4/Code/Geometry/Wrap/rdGeometry.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 12%] Linking CXX executable testChemicalFeatures +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemicalFeatures.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 12%] Built target testChemicalFeatures +[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/RWMol.cpp +[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/PeriodicTable.cpp +/build/rdkit-202009.4/Code/GraphMol/FindRings.cpp: In function 'void RDKit::MolOps::findRingFamilies(const RDKit::ROMol&)': +/build/rdkit-202009.4/Code/GraphMol/FindRings.cpp:1367:36: warning: unused parameter 'mol' [-Wunused-parameter] + 1367 | void findRingFamilies(const ROMol &mol) { + | ~~~~~~~~~~~~~^~~ +[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/atomic_data.cpp +[ 13%] Linking CXX shared module ../../../rdkit/Geometry/rdGeometry.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 13%] Built target rdGeometry +[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/QueryOps.cpp +[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolPickler.cpp +[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Canon.cpp +[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/AtomIterators.cpp +[ 13%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/BondIterators.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/BondIterators.cpp +[ 14%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Aromaticity.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Aromaticity.cpp +/build/rdkit-202009.4/Code/GraphMol/MolPickler.cpp: In function 'void RDKit::streamReadPositiveChar(std::istream&, char&, int)': +/build/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:70:11: warning: comparison is always false due to limited range of data type [-Wtype-limits] + 70 | if (res < 0) { + | ~~~~^~~ /build/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/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/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:928:59: required from here @@ -3318,98 +3440,38 @@ /build/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/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:930:65: required from here /build/rdkit-202009.4/Code/GraphMol/MolPickler.cpp:1684:22: warning: comparison is always false due to limited range of data type [-Wtype-limits] -[ 12%] Linking CXX shared module ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdInfoTheory.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 12%] Built target rdInfoTheory -make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend.internal". -Scanning dependencies of target testChemicalFeatures -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make 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-Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -std=gnu++11 -o CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -c /build/rdkit-202009.4/Code/ChemicalFeatures/testChemicalFeatures.cpp -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/AtomIterators.cpp -[ 12%] Linking CXX executable geometryTestsCatch -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 12%] Built target geometryTestsCatch -[ 12%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/BondIterators.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/BondIterators.cpp -[ 12%] Linking CXX executable testChemicalFeatures -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemicalFeatures.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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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. 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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/AddHs.cpp -[ 14%] Linking CXX shared module ../../../rdkit/DataStructs/cDataStructs.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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-[ 16%] Linking CXX executable testConrec -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 -[ 16%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Renumber.cpp.o +[ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Renumber.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK 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/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/AdjustQuery.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/AdjustQuery.cpp -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 16%] Built target testConrec -[ 16%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Resonance.cpp.o +[ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/Resonance.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/Resonance.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Resonance.cpp -[ 16%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/StereoGroup.cpp.o +[ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/StereoGroup.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/StereoGroup.cpp -[ 16%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/new_canon.cpp.o +[ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/new_canon.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/new_canon.cpp -[ 16%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o +[ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/SubstanceGroup.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SubstanceGroup.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, @@ -3426,8 +3488,13 @@ /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( | ^~~~~~~~~~~~~~~~~~~~ -[ 16%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindStereo.cpp.o +[ 15%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol.dir/FindStereo.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FindStereo.cpp +[ 16%] Linking CXX executable testConrec +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 16%] Built target testConrec [ 17%] Linking CXX shared library ../../lib/libRDKitGraphMol.so cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/GraphMol.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 @@ -3436,96 +3503,96 @@ [ 17%] 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 -make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend -make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Substruct /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake --color= +make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend +make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Trajectory /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake --color= -make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend -make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend +make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Subgraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/PartialCharges /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake --color= -make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend.internal". +make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend.internal". make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/CIPLabeler /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend.internal". +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/PartialCharges /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake --color= +make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend.internal". +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend Scanning dependencies of target Trajectory +Scanning dependencies of target SubstructMatch make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/CIPLabeler /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend.internal". -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -Scanning dependencies of target PartialCharges -Scanning dependencies of target SubstructMatch -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend.internal". +Scanning dependencies of target PartialCharges +Scanning dependencies of target MolCatalog +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend.internal". make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build -Scanning dependencies of target MolCatalog -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend.internal". -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build [ 17%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/Trajectory.cpp.o -Scanning dependencies of target Subgraphs cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_TRAJECTORY_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Trajectory/Trajectory.cpp +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +Scanning dependencies of target Subgraphs +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 18%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend.internal". +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/PartialCharges/GasteigerCharges.cpp Scanning dependencies of target SmilesParse -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build -[ 18%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerCharges.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/PartialCharges/GasteigerCharges.cpp +[ 18%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolCatalog/MolCatalogEntry.cpp make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 18%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/SubstructMatch.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Substruct/SubstructMatch.cpp +[ 18%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/build/rdkit-202009.4/External/boost-numeric-bindings -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/Subgraphs.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Subgraphs/Subgraphs.cpp Scanning dependencies of target CIPLabeler -Scanning dependencies of target MolTransforms make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build [ 18%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesParse.cpp.o -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/SmilesParse.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/SmilesParse/SmilesParse.cpp make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 18%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructMatch.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/SubstructMatch.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Substruct/SubstructMatch.cpp -[ 18%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/Subgraphs.cpp.o +Scanning dependencies of target MolTransforms +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 18%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPMol.cpp.o -[ 18%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogEntry.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolCatalog/MolCatalogEntry.cpp +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/CIPMol.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPMol.cpp [ 18%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/MolTransforms.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolTransforms_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLTRANSFORMS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolTransforms/MolTransforms.cpp -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBGRAPHS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/build/rdkit-202009.4/External/boost-numeric-bindings -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/Subgraphs.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Subgraphs/Subgraphs.cpp -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/CIPMol.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPMol.cpp -[ 18%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPLabeler.cpp [ 18%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/GasteigerParams.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DPartialCharges_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_PARTIALCHARGES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/PartialCharges/GasteigerParams.cpp +[ 18%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/CIPLabeler.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPLabeler.cpp [ 19%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/MolCatalogParams.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolCatalog/MolCatalogParams.cpp [ 19%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/SubgraphUtils.cpp.o @@ -3585,8 +3652,6 @@ cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/rdqueries.cpp [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Mancude.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/Mancude.cpp -[ 21%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Substruct/SubstructUtils.cpp [ 21%] Linking CXX shared library ../../../lib/libRDKitMolTransforms.so cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 @@ -3604,6 +3669,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 21%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/Trajectory.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/Trajectory.cpp +[ 21%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/SubstructUtils.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTMATCH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Substruct/SubstructUtils.cpp +[ 21%] Linking CXX shared library ../../../lib/libRDKitSubgraphs.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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, @@ -3625,9 +3695,6 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 21%] Linking CXX shared library ../../../lib/libRDKitSubgraphs.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' [ 21%] Built target Subgraphs @@ -3642,8 +3709,6 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 21%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/rdChemicalFeatures.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdChemicalFeatures.cpp.o -c /build/rdkit-202009.4/Code/ChemicalFeatures/Wrap/rdChemicalFeatures.cpp -[ 21%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/Queries.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -3667,6 +3732,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Digraph.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/Digraph.cpp +[ 21%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/Queries.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -3688,13 +3755,27 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 21%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Writer.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolInterchange_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLINTERCHANGE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/rapidjson -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolInterchange/Writer.cpp -[ 21%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ChemicalFeatures/Wrap/FreeChemicalFeature.cpp [ 21%] Linking CXX shared library ../../../lib/libRDKitSubstructMatch.so cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/SubstructMatch.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend.internal". +Scanning dependencies of target MolAlign +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 21%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolAlign/AlignMolecules.cpp +[ 21%] Building CXX object Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/FreeChemicalFeature.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ChemicalFeatures/Wrap/FreeChemicalFeature.cpp +[ 21%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/Writer.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolInterchange_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLINTERCHANGE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/rapidjson -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolInterchange/Writer.cpp [ 21%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmilesWrite.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SmilesParse/SmilesWrite.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, @@ -3715,23 +3796,9 @@ /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( | ^~~~~~~~~~~~~~~~~~~~ -cd /build/rdkit-202009.4/obj-aarch64-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 /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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend.internal". -Scanning dependencies of target MolAlign -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/AlignMolecules.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolAlign/AlignMolecules.cpp [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Node.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/Node.cpp [ 21%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/SLNAttribs.cpp.o @@ -3759,8 +3826,6 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ [ 21%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/rdTrajectory.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/rdTrajectory.cpp -[ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Edge.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/Edge.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/Edge.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, @@ -3782,8 +3847,8 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Sort.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/Sort.cpp +[ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Edge.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/Edge.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/Edge.cpp [ 21%] Linking CXX shared module ../../../rdkit/Chem/rdtrajectory.so cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so -lpthread @@ -3798,16 +3863,14 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Linking CXX shared module ../../../rdkit/Chem/rdChemicalFeatures.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdChemicalFeatures.dir/link.txt --verbose=1 [ 21%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Numerics/Optimizer/BFGSOpt.cpp [ 21%] Linking CXX shared library ../../../lib/libRDKitMolAlign.so cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Built target rdChemicalFeatures +[ 21%] Built target MolAlign make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/PartialCharges/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/DependInfo.cmake --color= @@ -3819,45 +3882,30 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 21%] Building CXX object Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/rdPartialCharges.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdPartialCharges_EXPORTS -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/PartialCharges/Wrap/rdPartialCharges.cpp -cd /build/rdkit-202009.4/obj-aarch64-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 +[ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/Sort.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/Sort.cpp +[ 21%] Linking CXX shared module ../../../rdkit/Chem/rdChemicalFeatures.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Built target MolAlign +[ 21%] Built target rdChemicalFeatures make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolTransforms/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake --color= Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/depend.internal". -[ 21%] Linking CXX shared library ../../../lib/libRDKitMolInterchange.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolInterchange.dir/link.txt --verbose=1 Scanning dependencies of target rdMolTransforms make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 [ 21%] Building CXX object Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/rdMolTransforms.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolTransforms/Wrap/rdMolTransforms.cpp [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Configuration.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD 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../../../lib/libRDKitMolInterchange.so.1 ../../../lib/libRDKitMolInterchange.so -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Built target MolInterchange -make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ShapeHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend.internal". -Scanning dependencies of target ShapeHelpers -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ShapeHelpers/ShapeEncoder.cpp [ 21%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/LinearSearch.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/Numerics/Optimizer/LinearSearch.cpp [ 21%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/SmartsWrite.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SmilesParse/SmartsWrite.cpp -[ 21%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SLNParse/sln.tab.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, @@ -3879,6 +3927,42 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 21%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/sln.tab.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SLNParse/sln.tab.cpp +[ 21%] Linking CXX shared library ../../../lib/libRDKitMolInterchange.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolInterchange.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 21%] Built target MolInterchange +make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ShapeHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers 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Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeEncoder.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ShapeHelpers/ShapeEncoder.cpp +[ 21%] Linking CXX shared library ../../../lib/libRDKitOptimizer.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/Optimizer.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 21%] Built target Optimizer +make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend.internal". +Scanning dependencies of target rdMolCatalog +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 21%] Building CXX object Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -3902,30 +3986,14 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Sp2Bond.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp +[ 21%] Linking CXX shared module ../../../../rdkit/Chem/rdPartialCharges.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl [ 21%] Linking CXX shared module ../../../rdkit/Chem/rdqueries.so cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Built target rdqueries -make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend.internal". -Scanning dependencies of target rdMolCatalog -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Building CXX object Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/rdMolCatalog.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolCatalog/Wrap/rdMolCatalog.cpp -[ 21%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ShapeHelpers/ShapeUtils.cpp -[ 21%] Linking CXX shared library ../../../lib/libRDKitOptimizer.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/Optimizer.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Built target Optimizer +[ 21%] Built target rdPartialCharges make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolInterchange/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake --color= @@ -3937,11 +4005,8 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 21%] Building CXX object Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/rdMolInterchange.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/rapidjson -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolInterchange/Wrap/rdMolInterchange.cpp -[ 21%] Linking CXX shared module ../../../../rdkit/Chem/rdPartialCharges.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Built target rdPartialCharges +[ 21%] Built target rdqueries make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Depictor /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake --color= @@ -3975,6 +4040,8 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 21%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/ShapeUtils.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SHAPEHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ShapeHelpers/ShapeUtils.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, @@ -3998,12 +4065,13 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ [ 21%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/configs/Tetrahedral.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp -[ 21%] Linking CXX shared library ../../../lib/libRDKitShapeHelpers.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ShapeHelpers.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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 +[ 21%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SLNParse/lex.yysln.cpp +[ 22%] Linking CXX shared module ../../../../rdkit/Chem/rdMolTransforms.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Built target ShapeHelpers +[ 22%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/CoordGen/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake --color= @@ -4013,15 +4081,16 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Building CXX object External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o +[ 22%] Building CXX object External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/Wrap && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/External/CoordGen/Wrap/rdCoordGen.cpp -[ 21%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/lex.yysln.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SLNPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SLNParse/lex.yysln.cpp -[ 21%] Linking CXX shared module ../../../../rdkit/Chem/rdMolInterchange.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 22%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT 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../../../lib/libRDKitShapeHelpers.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 21%] Built target rdMolInterchange +[ 22%] Built target ShapeHelpers make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Optimizer /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/DependInfo.cmake --color= @@ -4031,13 +4100,31 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.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/testOptimizer.dir/testOptimizer.cpp.o -c /build/rdkit-202009.4/Code/Numerics/Optimizer/testOptimizer.cpp -[ 22%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/CXSmilesOps.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SmilesParse/CXSmilesOps.cpp -[ 23%] Linking CXX shared module ../../../../rdkit/Chem/rdMolTransforms.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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'/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ForceField /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/depend.internal". +Scanning dependencies of target ForceField +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 23%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/ForceField.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/ForceField.cpp +[ 23%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Depictor/EmbeddedFrag.cpp +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule1a.cpp +[ 24%] Linking CXX shared module ../../../../rdkit/Chem/rdMolCatalog.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolCatalog.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-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, @@ -4060,27 +4147,7 @@ 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 23%] Built target rdMolTransforms -make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ForceField /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/depend.internal". -Scanning dependencies of target ForceField -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 23%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/ForceField.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/ForceField.cpp -[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1a.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule1a.cpp -[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule1b.cpp -[ 24%] Linking CXX executable testOptimizer -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/testOptimizer.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 24%] Built target testOptimizer +[ 24%] Built target rdMolCatalog make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake --color= @@ -4092,20 +4159,22 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 24%] Building CXX object Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/rdShapeHelpers.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule1b.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule1b.cpp [ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule2.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule2.cpp -[ 24%] Linking CXX shared module ../../../../rdkit/Chem/rdMolCatalog.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolCatalog.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 24%] Linking CXX executable testOptimizer +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/testOptimizer.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 24%] Built target rdMolCatalog -[ 24%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/UFF/AngleBend.cpp -[ 24%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/EmbeddedFrag.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Depictor/EmbeddedFrag.cpp +[ 24%] Built target testOptimizer +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule3.cpp [ 24%] Linking CXX shared library ../../../lib/libRDKitSLNParse.so cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4a.cpp cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' [ 24%] Built target SLNParse @@ -4120,8 +4189,10 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 24%] Building CXX object Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/rdSLNParse.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SLNParse/Wrap/rdSLNParse.cpp -[ 24%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/UFF/BondStretch.cpp +[ 24%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleBend.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/UFF/AngleBend.cpp +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4b.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, @@ -4143,28 +4214,10 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 24%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Nonbonded.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/UFF/Nonbonded.cpp -In file included from /build/rdkit-202009.4/Code/GraphMol/Conformer.h:14, - from /build/rdkit-202009.4/Code/GraphMol/RDKitBase.h:25, - from /build/rdkit-202009.4/External/CoordGen/Wrap/rdCoordGen.cpp:17: -/build/rdkit-202009.4/Code/Geometry/point.h: In function 'void RDKit::{anonymous}::SetCoordMap(RDKit::CoordGen::CoordGenParams*, boost::python::dict&)': -/build/rdkit-202009.4/Code/Geometry/point.h:296:15: warning: '*((void*)(&)+32).RDGeom::Point2D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 296 | x = other.x; - | ~~~~~~^ -[ 25%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/Inversion.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/UFF/Inversion.cpp -[ 25%] Linking CXX shared module ../../../rdkit/Chem/rdCoordGen.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdCoordGen.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdCoordGen.so CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o /usr/lib/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so ../../../lib/libRDKitMolAlign.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitRDBoost.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 -ldl /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so -lpthread -[ 25%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule3.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule3.cpp -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 25%] Built target rdCoordGen -[ 25%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4a.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4a.cpp -[ 25%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4b.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4c.cpp +[ 24%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -4186,12 +4239,21 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 25%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule4c.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4c.cpp -[ 25%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/UFF/TorsionAngle.cpp -[ 25%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule5.cpp +[ 24%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/BondStretch.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/UFF/BondStretch.cpp +[ 25%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule5New.cpp +[ 25%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule6.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule6.cpp +[ 25%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/SequenceRule.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/SequenceRule.cpp +In file included from /build/rdkit-202009.4/Code/GraphMol/Conformer.h:14, + from /build/rdkit-202009.4/Code/GraphMol/RDKitBase.h:25, + from /build/rdkit-202009.4/External/CoordGen/Wrap/rdCoordGen.cpp:17: +/build/rdkit-202009.4/Code/Geometry/point.h: In function 'void RDKit::{anonymous}::SetCoordMap(RDKit::CoordGen::CoordGenParams*, boost::python::dict&)': +/build/rdkit-202009.4/Code/Geometry/point.h:296:15: warning: '*((void*)(&)+32).RDGeom::Point2D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 296 | x = other.x; + | ~~~~~~^ In file included from /build/rdkit-202009.4/Code/GraphMol/Conformer.h:14, from /build/rdkit-202009.4/Code/GraphMol/ROMol.h:36, from /build/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap/rdShapeHelpers.cpp:13: @@ -4232,66 +4294,43 @@ /build/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} | ~~~~~~^ -[ 25%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smarts.tab.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SmilesParse/smarts.tab.cpp -[ 25%] Building 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CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o -c /build/rdkit-202009.4/Code/ForceField/UFF/DistanceConstraint.cpp -[ 26%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/rules/Rule5New.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DCIPLabeler_EXPORTS -DRDKIT_CIPLABELER_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/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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-fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/UFF/Inversion.cpp +[ 26%] Linking CXX shared module ../../../rdkit/Chem/rdCoordGen.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdCoordGen.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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/usr/lib/aarch64-linux-gnu/libboost_python39.so -lpthread +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 26%] Built target rdCoordGen +[ 26%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionAngle.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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-I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule6.cpp -[ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/UFF/AngleConstraint.cpp +[ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/DistanceConstraint.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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Code/ForceField/CMakeFiles/ForceField.dir/UFF/AngleConstraint.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/UFF/AngleConstraint.cpp make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 27%] Built target rdShapeHelpers [ 27%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/UFF/TorsionConstraint.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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-fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/SequenceRule.cpp -[ 27%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SmilesParse/smiles.tab.cpp -[ 28%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmarts.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SmilesParse/lex.yysmarts.cpp -[ 28%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SmilesParse/lex.yysmiles.cpp -[ 28%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DepictUtils.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDepictor_EXPORTS -DIN_COORDGEN -DRDKIT_DEPICTOR_BUILD -DRDKIT_DYN_LINK 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-I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/MMFF/StretchBend.cpp -[ 29%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED 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../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 29%] Built target SmilesParse +[ 27%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap 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Code/ForceField/CMakeFiles/ForceField.dir/MMFF/BondStretch.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/MMFF/BondStretch.cpp +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/StretchBend.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/MMFF/StretchBend.cpp +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/OopBend.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/MMFF/OopBend.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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/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("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionAngle.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall 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-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/MMFF/DistanceConstraint.cpp -[ 29%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/AngleConstraint.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/MMFF/AngleConstraint.cpp +[ 28%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/MMFF/TorsionConstraint.cpp +[ 28%] Linking CXX shared module ../../../../rdkit/Chem/rdCIPLabeler.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdCIPLabeler.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 28%] Built target rdCIPLabeler +[ 29%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o +cd 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Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Params.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/MMFF/Params.cpp +[ 29%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/smiles.tab.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SmilesParse/smiles.tab.cpp [ 29%] Linking CXX shared library ../../../lib/libRDKitDepictor.so cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/Depictor.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' [ 29%] Built target Depictor -make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend.internal". -Scanning dependencies of target ReducedGraphs -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 29%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_REDUCEDGRAPHS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DReducedGraphs_EXPORTS -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs/ReducedGraphs.cpp -[ 29%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/TorsionConstraint.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/MMFF/TorsionConstraint.cpp -[ 30%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/PositionConstraint.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/MMFF/PositionConstraint.cpp -[ 30%] Building CXX object Code/ForceField/CMakeFiles/ForceField.dir/MMFF/Params.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceField_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELD_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/MMFF/Params.cpp -make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend +make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SLNParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend.internal". -Scanning dependencies of target testSLNParse +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Depictor/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend.internal". +Scanning dependencies of target rdDepictor make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build +make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/test.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/SLNParse/test.cpp +[ 29%] Building CXX object Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DRDKIT_DYN_LINK 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/usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SmilesParse/lex.yysmarts.cpp +[ 30%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/lex.yysmiles.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SMILESPARSE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SmilesParse/lex.yysmiles.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, @@ -4354,115 +4430,92 @@ 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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/Wrap/rdCIPLabeler.cpp:13: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -make -f Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Abbreviations /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/depend.internal". -Scanning dependencies of target Abbreviations -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DAbbreviations_EXPORTS -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_ABBREVIATIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Abbreviations/Abbreviations.cpp -[ 30%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DAbbreviations_EXPORTS -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_ABBREVIATIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Abbreviations/AbbreviationsUtils.cpp -[ 30%] Linking CXX shared module ../../../../rdkit/Chem/rdCIPLabeler.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdCIPLabeler.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 30%] Linking CXX shared library ../../../lib/libRDKitSmilesParse.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SmilesParse.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Built target rdCIPLabeler +[ 30%] Built target SmilesParse make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend +make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake --color= -make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend -make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend.internal". -Dependee 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"/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend.internal". +make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend +make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/DependInfo.cmake --color= Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend.internal". -[ 30%] Building CXX object Code/GraphMol/CMakeFiles/graphmolcpTest.dir/cptest.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/cptest.cpp -Scanning dependencies of target ChemTransforms -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/ChemTransforms.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemTransforms/ChemTransforms.cpp -Scanning dependencies of target FileParsers -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/Mol2FileParser.cpp -[ 30%] Linking CXX shared library ../../../lib/libRDKitReducedGraphs.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/ReducedGraphs.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Built target ReducedGraphs -make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/test-valgrind.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/DependInfo.cmake --color= +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol 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Scanning dependencies of target graphmolqueryTest make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build +Scanning dependencies of target test-valgrind +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend.internal". make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Building CXX object Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/querytest.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/querytest.cpp -[ 30%] Linking CXX shared library ../../lib/libRDKitForceField.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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/build/rdkit-202009.4/obj-aarch64-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 -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/depend +make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/test-valgrind.dir/DependInfo.cmake --color= +Scanning dependencies of target graphmolcpTest make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/test-valgrind.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/test-valgrind.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/test-valgrind.dir/depend.internal". -[ 30%] Built target ForceField -make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend -Scanning dependencies of target test-valgrind +make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build +Scanning dependencies of target ChemTransforms make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/DependInfo.cmake --color= -make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/build +make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Building CXX object Code/GraphMol/CMakeFiles/test-valgrind.dir/test-valgrind.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD 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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/ChemTransforms.dir/ChemTransforms.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemTransforms/ChemTransforms.cpp +Scanning dependencies of target FileParsers +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 30%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/Mol2FileParser.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/Mol2FileParser.cpp +[ 30%] Linking CXX shared library ../../lib/libRDKitForceField.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Built target graphmolcpTest +[ 30%] Built target ForceField make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/DependInfo.cmake --color= @@ -4474,28 +4527,17 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 30%] Building CXX object Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/memtest1.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/memtest1.cpp -[ 30%] Linking CXX shared library ../../../lib/libRDKitAbbreviations.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/cmake 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../../../lib/libRDKitAbbreviations.so.1.2020.09.4 ../../../lib/libRDKitAbbreviations.so.1 ../../../lib/libRDKitAbbreviations.so -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Built target Abbreviations -make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Depictor/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend.internal". -Scanning dependencies of target rdDepictor -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Building CXX object Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/rdDepictor.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD 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--verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +In file included from /build/rdkit-202009.4/Code/GraphMol/Depictor/RDDepictor.h:16, + from /build/rdkit-202009.4/Code/GraphMol/Depictor/Wrap/rdDepictor.cpp:17: +/build/rdkit-202009.4/Code/Geometry/point.h: In function 'unsigned int RDDepict::Compute2DCoords(RDKit::ROMol&, bool, bool, boost::python::dict&, unsigned int, unsigned int, int, bool, double, bool)': +/build/rdkit-202009.4/Code/Geometry/point.h:296:15: warning: '*((void*)(&)+32).RDGeom::Point2D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 296 | x = other.x; + | ~~~~~~^ +[ 31%] Linking CXX shared module ../../../../rdkit/Chem/rdDepictor.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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-[ 30%] Built target test-valgrind +[ 31%] Built target rdDepictor make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/DependInfo.cmake --color= @@ -4505,54 +4547,29 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Building CXX object 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-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/rdkit-202009.4/Code/GraphMol/FileParsers/MolFileParser.cpp -[ 30%] Linking CXX executable graphmolIterTest -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +[ 31%] Linking CXX executable test-valgrind +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-valgrind.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Built target graphmolIterTest +[ 31%] Built target test-valgrind make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake --color= -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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/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("") - | ^~~~~~~~~~~~~~~~~~~~~~~ Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/depend.internal". Scanning dependencies of target smiTest2 make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/test2.cpp.o +[ 31%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/test2.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/SmilesParse/test2.cpp -[ 30%] Linking CXX executable graphmolMemTest1 -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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-fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemTransforms/MolFragmenter.cpp +[ 31%] Linking CXX executable graphmolcpTest +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolcpTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Built target graphmolMemTest1 +[ 31%] Built target graphmolcpTest make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/DependInfo.cmake --color= @@ -4562,13 +4579,13 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o +[ 31%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/Fingerprints.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/Fingerprints.cpp -[ 31%] Linking CXX executable smiTest2 -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTest2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +[ 31%] Linking CXX executable graphmolIterTest +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 31%] Built target smiTest2 +[ 31%] Built target graphmolIterTest make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FilterCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/DependInfo.cmake --color= @@ -4580,17 +4597,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 32%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/Filters.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/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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-fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +[ 32%] Linking CXX executable graphmolMemTest1 +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 32%] Built target graphmolqueryTest +[ 32%] Built target graphmolMemTest1 make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Subgraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/DependInfo.cmake --color= @@ -4602,14 +4613,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 33%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/test2.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Subgraphs/test2.cpp -[ 34%] Linking CXX shared module ../../../../rdkit/Chem/rdDepictor.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDepictor.dir/link.txt --verbose=1 -[ 34%] Linking CXX executable testSLNParse -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSLNParse.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +[ 34%] Linking CXX executable smiTest2 +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smiTest2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 34%] Built target testSLNParse +[ 34%] Built target smiTest2 make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Subgraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/DependInfo.cmake --color= @@ -4619,10 +4627,19 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 34%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/test1.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/build/rdkit-202009.4/External/boost-numeric-bindings -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testSubgraphs1.dir/test1.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Subgraphs/test1.cpp -[ 34%] Built target rdDepictor +[ 34%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileParser.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MolFileParser.cpp +[ 34%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/FilterCatalog.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/FilterCatalog.cpp +[ 34%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/MolFragmenter.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemTransforms_EXPORTS -DRDKIT_CHEMTRANSFORMS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemTransforms/MolFragmenter.cpp +[ 34%] Linking CXX executable testSubgraphs2 +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubgraphs2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testSubgraphs2.dir/test2.cpp.o -o testSubgraphs2 ../../../lib/libRDKitSmilesParse.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/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 34%] Built target testSubgraphs2 make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FragCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/DependInfo.cmake --color= @@ -4636,13 +4653,11 @@ cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/FragCatalogUtils.cpp [ 35%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/PatternFingerprints.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/PatternFingerprints.cpp -[ 35%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/FilterCatalog.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/FilterCatalog.cpp -[ 35%] Linking CXX executable testSubgraphs2 -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubgraphs2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testSubgraphs2.dir/test2.cpp.o -o testSubgraphs2 ../../../lib/libRDKitSmilesParse.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/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 35%] Linking CXX executable graphmolqueryTest +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolqueryTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 35%] Built target testSubgraphs2 +[ 35%] Built target graphmolqueryTest make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/PartialCharges /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/DependInfo.cmake --color= @@ -4654,12 +4669,14 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 35%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/test1.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testPartialCharges.dir/test1.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/PartialCharges/test1.cpp -[ 35%] Linking CXX shared library ../../../lib/libRDKitChemTransforms.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemTransforms.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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 +[ 35%] Linking CXX executable testPartialCharges +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_link_script CMakeFiles/testPartialCharges.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testPartialCharges.dir/test1.cpp.o -o testPartialCharges ../../../lib/libRDKitPartialCharges.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 +[ 35%] Linking CXX executable testSubgraphs1 +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubgraphs1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 35%] Built target ChemTransforms +[ 35%] Built target testPartialCharges make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/DependInfo.cmake --color= @@ -4671,11 +4688,6 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 35%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeature.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.cpp -[ 35%] Linking CXX executable testSubgraphs1 -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testSubgraphs1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 -[ 35%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/MorganFingerprints.cpp make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 35%] Built target testSubgraphs1 make -f Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/depend @@ -4689,49 +4701,83 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 35%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/catch_tests.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/catch_tests.cpp +[ 35%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganFingerprints.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/MorganFingerprints.cpp [ 35%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatGenerator.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/FragCatGenerator.cpp -[ 35%] Linking CXX executable testPartialCharges -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_link_script CMakeFiles/testPartialCharges.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testPartialCharges.dir/test1.cpp.o -o testPartialCharges ../../../lib/libRDKitPartialCharges.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 +[ 35%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.cpp +[ 35%] Linking CXX shared library ../../../lib/libRDKitChemTransforms.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemTransforms.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 35%] Built target testPartialCharges -make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend +[ 35%] Built target ChemTransforms +[ 35%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPMol.cpp +[ 35%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FilterCatalog/FilterCatalogEntry.cpp +[ 35%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/FragCatalogEntry.cpp +[ 35%] Linking CXX executable smaTest1 +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smaTest1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +[ 35%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.cpp +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 35%] Built target smaTest1 +make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend.internal". -Scanning dependencies of target testReducedGraphs +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend.internal". +Scanning dependencies of target ReducedGraphs make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build +make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 35%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/test1.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/ReducedGraphs/test1.cpp -[ 35%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureDef.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.cpp -[ 36%] Linking CXX executable testReducedGraphs -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +[ 35%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_REDUCEDGRAPHS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DReducedGraphs_EXPORTS -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/ReducedGraphs.dir/ReducedGraphs.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs/ReducedGraphs.cpp +[ 35%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPLabeler.cpp +[ 35%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/AtomPairs.cpp +[ 35%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp +[ 35%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/Mancude.cpp +[ 35%] Linking CXX shared library ../../../lib/libRDKitReducedGraphs.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/ReducedGraphs.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 36%] Built target testReducedGraphs -make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend +[ 35%] Built target ReducedGraphs +make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend.internal". -Scanning dependencies of target rdReducedGraphs +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SLNParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend.internal". +Scanning dependencies of target testSLNParse make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build +make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 36%] Building CXX object Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ReducedGraphs/Wrap/rdReducedGraphs.cpp -[ 36%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatalogEntry.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/FragCatalogEntry.cpp -[ 36%] Linking CXX executable smaTest1 -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/smaTest1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 +[ 35%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/test.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/SLNParse/test.cpp +[ 35%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MACCS.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/MACCS.cpp +[ 35%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/FragCatParams.cpp +[ 35%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/Digraph.cpp +[ 35%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogRunner.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/FilterCatalogRunner.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/FilterCatalogRunner.cpp +[ 35%] Linking CXX shared library ../../../lib/libRDKitMolChemicalFeatures.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 36%] Built target smaTest1 +[ 35%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/FragFPGenerator.cpp +[ 35%] Built target MolChemicalFeatures make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/DependInfo.cmake --color= @@ -4741,35 +4787,14 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 36%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/rdchem.cpp.o +[ 35%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/rdchem.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdchem.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Wrap/rdchem.cpp -[ 36%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.cpp -[ 36%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairs.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/AtomPairs.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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/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("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 36%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FilterCatalog/FilterCatalogEntry.cpp +[ 35%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupParsing.cpp +[ 35%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Node.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/Node.cpp +[ 35%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MHFP.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/MHFP.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, @@ -4791,59 +4816,42 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 36%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/FeatureParser.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolChemicalFeatures_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLCHEMICALFEATURES_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp -[ 36%] Linking CXX shared module ../../../../rdkit/Chem/rdReducedGraphs.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 35%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/FilterMatchers.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/FilterMatchers.cpp +[ 36%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Edge.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 -c /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/Edge.cpp +[ 37%] Linking CXX shared library ../../../lib/libRDKitFragCatalog.so +cd /build/rdkit-202009.4/obj-aarch64-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 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-ldl +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 36%] Built target rdReducedGraphs -make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend +[ 37%] Built target FragCatalog +make -f Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Abbreviations/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend.internal". -Scanning dependencies of target rdAbbreviations +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Abbreviations /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/depend.internal". +Scanning dependencies of target Abbreviations make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/Abbreviations/CMakeFiles/Abbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 36%] Building CXX object Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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 -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Abbreviations/Wrap/rdAbbreviations.cpp -[ 36%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragCatParams.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/FragCatParams.cpp -[ 36%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolSGroupParsing.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupParsing.cpp -[ 36%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MACCS.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/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("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 36%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/FragFPGenerator.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFragCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FRAGCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/FragFPGenerator.cpp -[ 36%] Linking CXX shared library ../../../lib/libRDKitMolChemicalFeatures.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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 +[ 37%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DAbbreviations_EXPORTS -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_ABBREVIATIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Abbreviations.dir/Abbreviations.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Abbreviations/Abbreviations.cpp +[ 37%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Sort.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/Sort.cpp +[ 37%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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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-I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp +[ 37%] Linking CXX executable testSLNParse +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 36%] Built target MolChemicalFeatures +[ 37%] Built target testSLNParse make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu 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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/FileParsers.dir/MolSGroupWriting.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp -[ 36%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o +[ 37%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.cpp +[ 37%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DAbbreviations_EXPORTS -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_ABBREVIATIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/Abbreviations.dir/AbbreviationsUtils.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Abbreviations/AbbreviationsUtils.cpp +[ 37%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp +[ 37%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp +[ 37%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/UFF/Builder.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/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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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/Table.cpp -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 -[ 39%] Linking CXX shared module ../../../../rdkit/Chem/rdAbbreviations.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +In file included from /build/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: +/build/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SAPLines(int, const RDKit::SubstanceGroup&)': +/build/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/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/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: +/usr/include/aarch64-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 ()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 37%] Linking CXX shared library ../../../lib/libRDKitAbbreviations.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/cmake -E cmake_link_script CMakeFiles/Abbreviations.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 39%] Built target rdAbbreviations +[ 37%] Built target Abbreviations make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake --color= @@ -4882,15 +4918,35 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-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 -[ 40%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o +[ 38%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/rdMolChemicalFeatures.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/rdMolChemicalFeatures.cpp +[ 38%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/MorganGenerator.cpp +[ 38%] Linking CXX shared library ../../../lib/libRDKitFilterCatalog.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FilterCatalog.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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,libRDKitFilterCatalog.so.1 -o ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 CMakeFiles/FilterCatalog.dir/Filters.cpp.o CMakeFiles/FilterCatalog.dir/FilterCatalog.cpp.o CMakeFiles/FilterCatalog.dir/FilterCatalogEntry.cpp.o CMakeFiles/FilterCatalog.dir/FilterCatalogRunner.cpp.o CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o ../../../lib/libRDKitSubgraphs.so.1.2020.09.4 ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.so.1.2020.09.4 ../../../lib/libRDKitGraphMol.so.1.2020.09.4 ../../../lib/libRDKitCatalogs.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libboost_serialization.so ../../../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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 40%] Built target FragCatalog -[ 40%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeature.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp -[ 40%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/FingerprintGenerator.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/FingerprintGenerator.cpp +[ 38%] Built target FilterCatalog +make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend.internal". +Scanning dependencies of target testReducedGraphs +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 38%] Building CXX object Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/test1.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/ReducedGraphs/test1.cpp +[ 39%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Table.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/Table.cpp +[ 39%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MolFileStereochem.cpp +[ 39%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/Rule1a.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule1a.cpp +[ 39%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/Rule1b.cpp.o -c /build/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, @@ -4904,14 +4960,18 @@ 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/Table.cpp:13: + from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/rdMolChemicalFeatures.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 39%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule2.cpp +[ 39%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.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, @@ -4926,13 +4986,43 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp:12: + from /build/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/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeature.cpp +[ 40%] Linking CXX executable testReducedGraphs +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 40%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend.internal". +Scanning dependencies of target rdReducedGraphs +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 40%] Building CXX object Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/rdReducedGraphs.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_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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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MolFileWriter.cpp +[ 42%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4a.cpp +[ 42%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4b.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/Rule4b.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4b.cpp +[ 42%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4c.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4c.cpp +[ 43%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/RDKitFPGenerator.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, @@ -4946,60 +5036,16 @@ 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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/rdMolChemicalFeatures.cpp:11: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:14: -/build/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.h: In function 'std::string RDKit::SGroupWriting::BuildV2000SAPLines(int, const RDKit::SubstanceGroup&)': -/build/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/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/rdkit-202009.4/Code/GraphMol/FileParsers/MolSGroupWriting.cpp:11: -/usr/include/aarch64-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 ()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 40%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FilterMatchers.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/FilterMatchers.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/FilterMatchers.cpp -[ 40%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/AtomTyper.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.cpp -[ 40%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeatureFactory.cpp -[ 40%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileStereochem.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MolFileStereochem.cpp -[ 40%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp -[ 40%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Atom.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/Atom.cpp -[ 40%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/AtomPairGenerator.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/AtomPairGenerator.cpp -[ 40%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/FunctionalGroupHierarchy.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFilterCatalog_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FILTERCATALOG_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FilterCatalog/FunctionalGroupHierarchy.cpp +[ 43%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/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, @@ -5014,13 +5060,23 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeatureFactory.cpp:12: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 43%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Atom.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/Atom.cpp +[ 43%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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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-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/SequenceRule.cpp +[ 43%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Bond.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/Bond.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, @@ -5035,13 +5091,35 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp:12: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 43%] Linking CXX shared module ../../../../rdkit/Chem/rdReducedGraphs.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 43%] Built target rdReducedGraphs +make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Abbreviations/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend.internal". +Scanning dependencies of target rdAbbreviations +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 43%] Building CXX object Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/rdAbbreviations.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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 -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall 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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/FingerprintUtil.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Fingerprints/FingerprintUtil.cpp +[ 43%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/MolChemicalFeatureFactory.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/MolChemicalFeatureFactory.cpp +[ 43%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF/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, @@ -5056,34 +5134,18 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/Atom.cpp:12: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 41%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MolFileWriter.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MolFileWriter.cpp -[ 41%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/MorganGenerator.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/MorganGenerator.cpp -[ 42%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/RDKitFPGenerator.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/RDKitFPGenerator.cpp -[ 42%] Linking CXX shared module ../../../../rdkit/Chem/rdMolChemicalFeatures.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time 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-g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/FingerprintUtil.cpp -[ 42%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/MMFF/Builder.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.cpp -[ 42%] Linking CXX shared library ../../../lib/libRDKitFilterCatalog.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FilterCatalog.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -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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&& /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../lib/libRDKitFilterCatalog.so.1 ../../../lib/libRDKitFilterCatalog.so +[ 44%] Linking CXX executable testCIPLabeler +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 42%] Built target FilterCatalog +[ 44%] Built target testCIPLabeler make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/DependInfo.cmake --color= @@ -5093,12 +5155,8 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 42%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o +[ 44%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/rdfiltercatalog.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdfiltercatalog.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap/rdfiltercatalog.cpp -[ 42%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp -[ 42%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPMol.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPMol.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, @@ -5112,21 +5170,14 @@ 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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap/rdfiltercatalog.h:36, - from /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap/rdfiltercatalog.cpp:32: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 42%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/CIPLabeler.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/CIPLabeler.cpp -[ 42%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.cpp -[ 42%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Mancude.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/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, @@ -5141,48 +5192,45 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp:31: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 42%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Digraph.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/Digraph.cpp -[ 42%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionAngleM6.cpp -[ 42%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o +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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap/rdfiltercatalog.h:36, + from /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap/rdfiltercatalog.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("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 44%] Building CXX object Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/FilterCatalog.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap/FilterCatalog.cpp +[ 44%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ForwardSDMolSupplier.cpp.o cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp -[ 42%] Linking CXX shared library ../../../lib/libRDKitFingerprints.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/Fingerprints.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 -[ 42%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Node.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/Node.cpp -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 42%] Built target Fingerprints -make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/depend.internal". -Scanning dependencies of target rdMHFPFingerprint -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 42%] Building CXX object Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/MHFPWrapper.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/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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-D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/Bond.cpp -[ 43%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Edge.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 -c /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/Edge.cpp -[ 44%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.cpp -[ 44%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/Sort.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/Sort.cpp -[ 44%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Configuration.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Configuration.cpp +[ 44%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/TopologicalTorsionGenerator.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFingerprints_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FINGERPRINTS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/TopologicalTorsionGenerator.cpp +[ 44%] Building CXX object Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/ChemicalFeatureUtils.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap/ChemicalFeatureUtils.cpp +[ 44%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionAngleM6.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -5196,15 +5244,16 @@ 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/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap/MHFPWrapper.cpp:11: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 44%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Sp2Bond.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Sp2Bond.cpp +[ 45%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/CrystalFF/TorsionPreferences.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DForceFieldHelpers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FORCEFIELDHELPERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF/TorsionPreferences.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, @@ -5219,29 +5268,46 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/Bond.cpp:12: + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 44%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/configs/Tetrahedral.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/configs/Tetrahedral.cpp -[ 44%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1a.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/Rule1a.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule1a.cpp -[ 44%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule1b.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/Rule1b.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule1b.cpp -[ 44%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule2.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule2.cpp -[ 44%] Linking CXX shared library ../../../lib/libRDKitForceFieldHelpers.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceFieldHelpers.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 -[ 45%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule3.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD 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../../../lib/libRDKitForceFieldHelpers.so.1 ../../../lib/libRDKitForceFieldHelpers.so +[ 46%] Linking CXX shared module ../../../../rdkit/Chem/rdAbbreviations.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 46%] Built target rdAbbreviations +[ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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 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-I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/Conformer.cpp +[ 46%] Linking CXX shared module ../../../../rdkit/Chem/rdMolChemicalFeatures.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so 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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp -[ 46%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4a.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4a.cpp -[ 46%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule4b.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/Rule4b.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule4b.cpp -[ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DFileParsers_EXPORTS -DRDKIT_DYN_LINK 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Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule5.cpp -[ 46%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule5New.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/Rule5New.cpp -[ 46%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/Rule6.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/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, @@ -5280,59 +5332,15 @@ 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/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap/FingerprintGeneratorWrapper.cpp:13: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 46%] Building CXX object Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/rules/SequenceRule.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/CIPLabeler/rules/SequenceRule.cpp -[ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDWriter.cpp.o +[ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SDWriter.cpp.o cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/SDWriter.cpp -[ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp -[ 46%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/SmilesWriter.cpp -[ 47%] Linking CXX executable testCIPLabeler -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 -[ 47%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Mol.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/Mol.cpp -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 47%] Built target testCIPLabeler -make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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-I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp -[ 47%] Linking CXX shared module ../../../../rdkit/Chem/rdMHFPFingerprint.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMHFPFingerprint.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 47%] Built target rdMHFPFingerprint -make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/depend.internal". -Scanning dependencies of target O3AAlign -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 47%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DO3AAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolAlign/O3AAlignMolecules.cpp -[ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/TDTMolSupplier.cpp -[ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTWriter.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/TDTWriter.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FileParsers/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, @@ -5368,20 +5376,41 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp:11: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileParser.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/TplFileParser.cpp -[ 48%] Linking CXX shared module ../../../../rdkit/Chem/rdFingerprintGenerator.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, + 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/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("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 47%] Linking CXX shared library ../../../lib/libRDKitForceFieldHelpers.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceFieldHelpers.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 48%] Built target rdFingerprintGenerator +[ 47%] Built target ForceFieldHelpers make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake --color= @@ -5391,17 +5420,21 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 48%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o +[ 47%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/SubstructLibrary.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SubstructLibrary/SubstructLibrary.cpp -[ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/TplFileWriter.cpp -[ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBParser.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/PDBParser.cpp -[ 48%] Linking CXX shared module ../../../../rdkit/Chem/rdForceFieldHelpers.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdForceFieldHelpers.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SmilesWriter.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/SmilesWriter.cpp +[ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/TDTMolSupplier.cpp +[ 47%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TDTWriter.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/TDTWriter.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FileParsers/TDTWriter.cpp +[ 47%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/RingInfo.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/RingInfo.cpp +[ 47%] Linking CXX shared module ../../../../rdkit/Chem/rdFingerprintGenerator.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 48%] Built target rdForceFieldHelpers +[ 47%] Built target rdFingerprintGenerator make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DistGeom /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake --color= @@ -5411,13 +5444,13 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 48%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o +[ 47%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistGeomUtils.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 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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 ../../../../lib/libRDKitCatalogs.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libboost_serialization.so /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 47%] Linking CXX shared module ../../../../rdkit/Chem/rdMHFPFingerprint.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMHFPFingerprint.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 49%] Built target rdfiltercatalog +[ 47%] Built target rdMHFPFingerprint make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ForceField/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake --color= @@ -5427,20 +5460,10 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 49%] Building CXX object Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/ForceField.cpp.o +[ 47%] Building CXX object Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/ForceField.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp -[ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBWriter.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/PDBWriter.cpp -[ 49%] Linking CXX shared library ../../../lib/libRDKitO3AAlign.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/O3AAlign.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 49%] Built target O3AAlign -[ 49%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DistGeom/TriangleSmooth.cpp -[ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/PDBSupplier.cpp +[ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileParser.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/TplFileParser.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, @@ -5455,91 +5478,15 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/ForceField/Wrap/ForceField.cpp:12: + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 49%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing 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-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/XYZFileWriter.cpp -[ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MaeMolSupplier.cpp -[ 50%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DistGeom/ChiralViolationContrib.cpp -[ 50%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/ProximityBonds.cpp -[ 50%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o +[ 48%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/PatternFactory.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_SUBSTRUCTLIBRARY_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SubstructLibrary/PatternFactory.cpp -[ 50%] Linking CXX shared library ../../lib/libRDKitDistGeometry.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeometry.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 50%] Built target DistGeometry -make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend.internal". -Scanning dependencies of target DistGeomHelpers -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 50%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o -[ 51%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/SequenceParsers.cpp -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.cpp -[ 51%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && 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-std=gnu++11 -o CMakeFiles/FileParsers.dir/SVGParser.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FileParsers/SVGParser.cpp -[ 51%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PNGParser.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/PNGParser.cpp -[ 52%] Linking CXX shared library ../../../lib/libRDKitSubstructLibrary.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 52%] Built target SubstructLibrary -make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make 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dependencies of target testDistGeom -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 52%] Building CXX object Code/DistGeom/CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/DistGeom/testDistGeom.cpp -[ 52%] Linking CXX shared module ../../../rdkit/ForceField/rdForceField.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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-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/rdkit-202009.4/Code/DistGeom/Wrap/DistGeom.cpp -[ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/MultithreadedMolSupplier.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FileParsers/MultithreadedMolSupplier.cpp -[ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.cpp -[ 53%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Conformer.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/Conformer.cpp -[ 53%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Embedder.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, @@ -5554,13 +5501,21 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/DistGeom/Wrap/DistGeom.cpp:12: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/TplFileWriter.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/TplFileWriter.cpp +[ 48%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/EditableMol.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/EditableMol.cpp +[ 48%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/TriangleSmooth.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DistGeom/TriangleSmooth.cpp +[ 48%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/DistViolationContrib.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -5575,42 +5530,66 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/Conformer.cpp:12: + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 54%] Linking CXX executable testDistGeom -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeom.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testDistGeom.dir/testDistGeom.cpp.o -o testDistGeom ../../lib/libRDKitDistGeometry.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 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 48%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBParser.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/PDBParser.cpp +[ 49%] Linking CXX shared library ../../../lib/libRDKitSubstructLibrary.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 54%] Built target testDistGeom -make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend +[ 49%] Built target SubstructLibrary +[ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBWriter.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/PDBWriter.cpp +[ 49%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PDBSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/PDBSupplier.cpp +[ 50%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry.dir/ChiralViolationContrib.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeometry_EXPORTS -DRDKIT_DISTGEOMETRY_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DistGeom/ChiralViolationContrib.cpp +[ 51%] Linking CXX shared module ../../../../rdkit/Chem/rdfiltercatalog.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libboost_serialization.so /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so 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"/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend.internal". -Scanning dependencies of target rdSubstructLibrary +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend.internal". +Scanning dependencies of target rdForceFieldHelpers make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build +make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 54%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp -[ 54%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED 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../../../rdkit/DistanceGeometry/DistGeom.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeom.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 51%] Building CXX object Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/rdForceFields.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/Wrap/rdForceFields.cpp +[ 51%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/XYZFileWriter.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/XYZFileWriter.cpp +[ 51%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MonomerInfo.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/MonomerInfo.cpp +[ 52%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/ResonanceMolSupplier.cpp +[ 52%] Linking CXX shared library ../../lib/libRDKitDistGeometry.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeometry.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 54%] Built target DistGeom -[ 54%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/RingInfo.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/RingInfo.cpp -[ 54%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/EditableMol.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/EditableMol.cpp +[ 52%] Built target DistGeometry +make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/depend.internal". +Scanning dependencies of target O3AAlign +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 52%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/O3AAlignMolecules.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DO3AAlign_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLALIGN_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolAlign/O3AAlignMolecules.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, @@ -5624,17 +5603,32 @@ 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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.h:36, - from /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp:32: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 54%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MonomerInfo.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/MonomerInfo.cpp +[ 52%] Linking CXX shared module ../../../rdkit/ForceField/rdForceField.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 52%] Built target rdForceField +make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend.internal". +Scanning dependencies of target rdSubstructLibrary +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 52%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.cpp +[ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MaeMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MaeMolSupplier.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, @@ -5649,26 +5643,13 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp:31: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 55%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/ResonanceMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/ResonanceMolSupplier.cpp -In file included from /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp:34: -/build/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/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/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/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, @@ -5682,14 +5663,15 @@ 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/EditableMol.cpp:17: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 52%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/ProximityBonds.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/ProximityBonds.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, @@ -5703,14 +5685,21 @@ 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/RingInfo.cpp:12: + from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/rdSubstructLibrary.h:36, + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 52%] Building CXX object Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp +[ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceParsers.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/SequenceParsers.cpp +[ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SequenceWriters.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/SequenceWriters.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, @@ -5724,13 +5713,53 @@ 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/rdkit-202009.4/Code/GraphMol/Wrap/ResonanceMolSupplier.cpp:15: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 53%] Linking CXX shared module ../../../../rdkit/Chem/rdForceFieldHelpers.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdForceFieldHelpers.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 53%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MolBundle.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/MolBundle.cpp +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 53%] Built target rdForceFieldHelpers +[ 53%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/StereoGroup.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/StereoGroup.cpp +In file included from /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap/SubstructLibraryWrap.cpp:34: +/build/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/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/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/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 && + | ~~^~~~~~~~~~~ +[ 53%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/SubstanceGroup.cpp +[ 53%] Linking CXX shared library ../../../lib/libRDKitO3AAlign.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/O3AAlign.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 53%] Built target O3AAlign +make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend.internal". +Scanning dependencies of target DistGeomHelpers +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 53%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/BoundsMatrixBuilder.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.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, @@ -5744,29 +5773,13 @@ 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/MonomerInfo.cpp:13: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 55%] Linking CXX shared library ../../../lib/libRDKitDistGeomHelpers.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeomHelpers.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 55%] Built target DistGeomHelpers -[ 55%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/MolBundle.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/MolBundle.cpp -[ 55%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/StereoGroup.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/StereoGroup.cpp -[ 55%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/SubstanceGroup.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/SubstanceGroup.cpp -[ 55%] Linking CXX shared library ../../../lib/libRDKitFileParsers.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/FileParsers.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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, @@ -5787,22 +5800,10 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 55%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Chirality.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/Chirality.cpp -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 55%] Built target FileParsers -make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/depend.internal". -Scanning dependencies of target testCoordGen -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 55%] Building CXX object External/CoordGen/CMakeFiles/testCoordGen.dir/test.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/External/CoordGen/test.cpp +[ 53%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/Embedder.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeomHelpers_EXPORTS -DRDKIT_DISTGEOMHELPERS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Embedder.cpp +[ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/SVGParser.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/SVGParser.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, @@ -5816,13 +5817,17 @@ 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/rdkit-202009.4/Code/GraphMol/Wrap/StereoGroup.cpp:12: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/PNGParser.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/PNGParser.cpp +[ 53%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/Chirality.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/Chirality.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, @@ -5836,13 +5841,71 @@ 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/rdkit-202009.4/Code/GraphMol/Wrap/SubstanceGroup.cpp:12: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/MultithreadedMolSupplier.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FileParsers/MultithreadedMolSupplier.cpp +[ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSmilesMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MultithreadedSmilesMolSupplier.cpp +[ 53%] Linking CXX shared module ../../../../rdkit/Chem/rdSubstructLibrary.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSubstructLibrary.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdSubstructLibrary.so CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o ../../../../lib/libRDKitSubstructLibrary.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.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/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libboost_serialization.so /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 53%] Built target rdSubstructLibrary +make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DistGeom /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/depend.internal". +Scanning dependencies of target testDistGeom +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 53%] Building CXX object Code/DistGeom/CMakeFiles/testDistGeom.dir/testDistGeom.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/DistGeom/testDistGeom.cpp +[ 53%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/MultithreadedSDMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-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_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FileParsers/MultithreadedSDMolSupplier.cpp +In file included from /build/rdkit-202009.4/Code/GraphMol/Conformer.h:14, + from /build/rdkit-202009.4/Code/GraphMol/RDKitBase.h:25, + from /build/rdkit-202009.4/Code/GraphMol/Wrap/SubstanceGroup.cpp:17: +/build/rdkit-202009.4/Code/Geometry/point.h: In function 'void RDKit::{anonymous}::addBracketHelper(RDKit::SubstanceGroup&, boost::python::api::object)': +/build/rdkit-202009.4/Code/Geometry/point.h:58:31: warning: '*((void*)(&)+32).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/rdkit-202009.4/Code/Geometry/point.h:58:43: warning: '*((void*)(&)+32).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/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] + 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} + | ~~~~~~^ +[ 53%] Linking CXX shared library ../../../lib/libRDKitDistGeomHelpers.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeomHelpers.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 53%] Built target DistGeomHelpers +make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DistGeom/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend.internal". +Scanning dependencies of target DistGeom +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 54%] Building CXX object Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DistGeom.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDistGeom_EXPORTS -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/DistGeom/Wrap/DistGeom.cpp +[ 55%] Linking CXX executable testDistGeom +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDistGeom.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testDistGeom.dir/testDistGeom.cpp.o -o testDistGeom ../../lib/libRDKitDistGeometry.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 ../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 55%] Built target testDistGeom 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, @@ -5857,127 +5920,122 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/Chirality.cpp:10: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 55%] Linking CXX shared module ../../../rdkit/DistanceGeometry/DistGeom.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeom.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 55%] Built target DistGeom +[ 55%] Linking CXX shared module ../../../rdkit/Chem/rdchem.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdchem.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 55%] Built target rdchem +[ 55%] Linking CXX shared library ../../../lib/libRDKitFileParsers.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/FileParsers.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 55%] Built target FileParsers +make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake --color= make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ForceField/UFF 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CMakeFiles/rdSubstructLibrary.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdSubstructLibrary.so CMakeFiles/rdSubstructLibrary.dir/rdSubstructLibrary.cpp.o CMakeFiles/rdSubstructLibrary.dir/SubstructLibraryWrap.cpp.o ../../../../lib/libRDKitSubstructLibrary.so.1.2020.09.4 ../../../../lib/libRDKitRDBoost.so.1.2020.09.4 ../../../../lib/libRDKitFingerprints.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/libRDKitCatalogs.so.1.2020.09.4 ../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libboost_serialization.so /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 56%] Built target rdSubstructLibrary make -f Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol 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Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/catch_chirality.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/catch_chirality.cpp 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"/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/depend.internal". -Scanning dependencies of target graphmolSGroupCatch -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 56%] Building CXX object Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_sgroups.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/catch_sgroups.cpp -[ 56%] Building CXX object Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_main.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/catch_main.cpp make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend.internal". -Scanning dependencies of target graphmolTestsCatch -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 56%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/catch_graphmol.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/catch_graphmol.cpp -In file included from /build/rdkit-202009.4/Code/GraphMol/Conformer.h:14, - from /build/rdkit-202009.4/Code/GraphMol/RDKitBase.h:25, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/SubstanceGroup.cpp:17: -/build/rdkit-202009.4/Code/Geometry/point.h: In function 'void RDKit::{anonymous}::addBracketHelper(RDKit::SubstanceGroup&, boost::python::api::object)': -/build/rdkit-202009.4/Code/Geometry/point.h:58:31: warning: '*((void*)(&)+32).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/rdkit-202009.4/Code/Geometry/point.h:58:43: warning: '*((void*)(&)+32).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/rdkit-202009.4/Code/Geometry/point.h:58:55: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] - 58 | : Point(other), x(other.x), y(other.y), z(other.z) {} - | ~~~~~~^ -[ 56%] Linking CXX executable testCoordGen -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoordGen.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 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"/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/UFF/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/depend.internal". 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Scanning dependencies of target testSGroup make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 56%] Building CXX object Code/GraphMol/CMakeFiles/testSGroup.dir/testSGroup.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/testSGroup.cpp -[ 56%] Linking CXX executable testUFFForceField -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/UFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testUFFForceField.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 56%] Built target testUFFForceField -make -f Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/depend.internal". 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'/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build +Scanning dependencies of target testMMFFForceField +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build +[ 55%] Building CXX object Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/catch_adjustquery.cpp.o +[ 55%] Building CXX object Code/GraphMol/CMakeFiles/testSGroup.dir/testSGroup.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ 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/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdchem.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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/usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 57%] Built target rdchem +[ 56%] Built target testUFFForceField make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/DependInfo.cmake --color= @@ -5987,13 +6045,17 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 57%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o +[ 56%] Building CXX object Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/testPicklerGlobalSettings.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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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../../../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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 56%] Building CXX object Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/catch_main.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/catch_main.cpp +[ 57%] Building CXX object Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/catch_main.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/catch_main.cpp +[ 57%] Linking CXX executable testCoordGen +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoordGen.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 57%] Built target testMMFFForceField +[ 57%] Built target testCoordGen make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol 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/usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/catch_main.cpp +[ 57%] Linking CXX executable testSGroup +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake --color= @@ -6018,13 +6083,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 57%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTest1.dir/test1.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/test1.cpp -[ 57%] Linking CXX executable testSGroup -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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/usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -[ 57%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/catch_main.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/catch_main.cpp +[ 57%] Linking CXX executable testMMFFForceField +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceField.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 57%] Built target testSGroup +[ 57%] Built target testMMFFForceField make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/DependInfo.cmake --color= @@ -6036,6 +6099,10 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 57%] Building CXX object Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/resMolSupplierTest.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/resMolSupplierTest.cpp +[ 57%] Building CXX object Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/catch_main.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/catch_main.cpp +[ 57%] Building CXX object Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/catch_main.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/catch_main.cpp [ 57%] Linking CXX executable graphmoltestPicklerGlobalSetting cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPicklerGlobalSetting.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so @@ -6084,11 +6151,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 58%] Building CXX object Code/GraphMol/CMakeFiles/hanoiTest.dir/hanoitest.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/hanoitest.cpp -[ 58%] Linking CXX executable graphmolSGroupCatch -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 58%] Linking CXX executable graphmoltestChirality +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestChirality.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 58%] Built target graphmolSGroupCatch +[ 58%] Built target graphmoltestChirality make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/molBundleTest.dir/DependInfo.cmake --color= @@ -6100,11 +6167,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 59%] Building CXX object Code/GraphMol/CMakeFiles/molBundleTest.dir/testMolBundle.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/molBundleTest.dir/testMolBundle.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/testMolBundle.cpp -[ 59%] Linking CXX executable graphmoltestChirality -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestChirality.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 60%] Linking CXX executable graphmoltestPickler +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPickler.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 59%] Built target graphmoltestChirality +[ 60%] Built target graphmoltestPickler make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Depictor /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/DependInfo.cmake --color= @@ -6114,13 +6181,13 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 59%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/testDepictor.cpp.o +[ 60%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/testDepictor.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Depictor/testDepictor.cpp -[ 59%] Linking CXX executable molBundleTest +[ 60%] Linking CXX executable molBundleTest cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 59%] Built target molBundleTest +[ 60%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/DependInfo.cmake --color= @@ -6130,13 +6197,10 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 59%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/test.cpp.o +[ 60%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/test.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/SmilesParse/test.cpp -[ 60%] Linking CXX executable graphmoltestPickler -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmoltestPickler.dir/link.txt --verbose=1 [ 60%] Linking CXX executable hanoiTest cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/hanoiTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 60%] Built target hanoiTest @@ -6145,26 +6209,29 @@ cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake --color= Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/depend.internal". -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' Scanning dependencies of target smiTestCatch make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 60%] Built target graphmoltestPickler +[ 60%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/SmilesParse/catch_tests.cpp +[ 60%] Linking CXX executable graphmolSGroupCatch +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 60%] Linking CXX executable graphmolAdjustQueryCatch +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 60%] Built target graphmolSGroupCatch make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake --color= -[ 60%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/catch_tests.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/SmilesParse/catch_tests.cpp Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/depend.internal". Scanning dependencies of target cxsmilesTest -[ 60%] Linking CXX executable graphmolAdjustQueryCatch make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolAdjustQueryCatch.dir/link.txt --verbose=1 make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so [ 61%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/cxsmiles_test.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/cxsmilesTest.dir/cxsmiles_test.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/SmilesParse/cxsmiles_test.cpp make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' @@ -6207,32 +6274,32 @@ make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/depend.internal". Scanning dependencies of target fileParsersTest1 -[ 63%] Built target chiralityTestsCatch -make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend.internal". [ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/test1.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FileParsers/test1.cpp +[ 64%] Linking CXX executable graphmolTestsCatch +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 64%] Built target chiralityTestsCatch +make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend.internal". Scanning dependencies of target testMolSupplier make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o +[ 64%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/testMolSupplier.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FileParsers/testMolSupplier.cpp -[ 63%] Linking CXX executable cxsmilesTest -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 63%] Built target cxsmilesTest +[ 64%] Built target graphmolTestsCatch make -f Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/DependInfo.cmake --color= @@ -6242,17 +6309,13 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 63%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o +[ 64%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/testMultithreadedMolSupplier.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FileParsers/testMultithreadedMolSupplier.cpp -/build/rdkit-202009.4/Code/GraphMol/FileParsers/testMolSupplier.cpp: In function 'void testGitHub3517()': -/build/rdkit-202009.4/Code/GraphMol/FileParsers/testMolSupplier.cpp:2805:10: warning: unused variable 'l' [-Wunused-variable] - 2805 | size_t l = sdsup.length(); - | ^ -[ 64%] Linking CXX executable graphmolTestsCatch -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 64%] Linking CXX executable cxsmilesTest +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 64%] Built target graphmolTestsCatch +[ 64%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/DependInfo.cmake --color= @@ -6264,12 +6327,13 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 64%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/testExtendedStereoParsing.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FileParsers/testExtendedStereoParsing.cpp +/build/rdkit-202009.4/Code/GraphMol/FileParsers/testMolSupplier.cpp: In function 'void testGitHub3517()': +/build/rdkit-202009.4/Code/GraphMol/FileParsers/testMolSupplier.cpp:2805:10: warning: unused variable 'l' [-Wunused-variable] + 2805 | size_t l = sdsup.length(); + | ^ [ 65%] Linking CXX executable testExtendedStereoParsing cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testExtendedStereoParsing.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -[ 65%] Linking CXX executable testMultithreadedMolSupplier -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultithreadedMolSupplier.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 65%] Built target testExtendedStereoParsing make -f Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/depend @@ -6283,6 +6347,9 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/testGeneralFileReader.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FileParsers/testGeneralFileReader.cpp +[ 65%] Linking CXX executable testMultithreadedMolSupplier +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMultithreadedMolSupplier.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 65%] Built target testMultithreadedMolSupplier make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/depend @@ -6294,10 +6361,10 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 65%] Linking CXX executable testMolWriter -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolWriter.dir/link.txt --verbose=1 [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/testTpls.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FileParsers/testTpls.cpp +[ 65%] Linking CXX executable testMolWriter +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolWriter.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 65%] Built target testMolWriter @@ -6312,11 +6379,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/testMol2ToMol.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FileParsers/testMol2ToMol.cpp -[ 65%] Linking CXX executable testMol2ToMol -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMol2ToMol.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 65%] Linking CXX executable testTplParser +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testTplParser.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 65%] Built target testMol2ToMol +[ 65%] Built target testTplParser make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/DependInfo.cmake --color= @@ -6328,11 +6395,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 65%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/file_parsers_catch.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FileParsers/file_parsers_catch.cpp -[ 65%] Linking CXX executable testTplParser -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testTplParser.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 65%] Linking CXX executable testMol2ToMol +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMol2ToMol.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 65%] Built target testTplParser +[ 65%] Built target testMol2ToMol make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/DependInfo.cmake --color= @@ -6360,11 +6427,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 66%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/test1.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Substruct/test1.cpp -[ 66%] Linking CXX executable testMolSupplier -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolSupplier.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -lpthread /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 66%] Linking CXX executable smiTest1 +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 66%] Built target testMolSupplier +[ 66%] Built target smiTest1 make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Substruct /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/DependInfo.cmake --color= @@ -6376,11 +6443,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 66%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/catch_tests.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Substruct/catch_tests.cpp -[ 66%] Linking CXX executable smiTest1 -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 66%] Linking CXX executable testMolSupplier +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolSupplier.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -lpthread /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 66%] Built target smiTest1 +[ 66%] Built target testMolSupplier make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/DependInfo.cmake --color= @@ -6392,17 +6459,21 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 66%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Crippen.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/Crippen.cpp -[ 66%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/catch_main.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FileParsers/catch_main.cpp -[ 66%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/BCUT.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/BCUT.cpp -[ 66%] Linking CXX executable testSubstructMatch -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so [ 67%] Linking CXX executable graphmolMolOpsTest cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphmolMolOpsTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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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Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 67%] Built target graphmolMolOpsTest +[ 67%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/BCUT.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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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/testPropertyLists.dir/catch_main.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FileParsers/catch_main.cpp +[ 67%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolDescriptors.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include 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-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 67%] Built target testSubstructMatch make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' @@ -6415,8 +6486,22 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 67%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/testChemTransforms.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_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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-DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/MolSurf.cpp +[ 67%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/catch_main.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD 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../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 68%] Linking CXX executable fileParsersTest1 +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/fileParsersTest1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat 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/usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 67%] Built target graphmolMolOpsTest +[ 68%] Built target smiTestCatch make -f Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms 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fileParsersTest1 -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/fileParsersTest1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 68%] Built target fileParsersTest1 make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/depend @@ -6448,11 +6526,15 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 68%] Building CXX object Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/filtercatalogtest.cpp.o cd 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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 /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 68%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MQN.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED 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cmake_link_script CMakeFiles/testChemTransforms.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 68%] Built target smiTestCatch +[ 69%] Built target testChemTransforms make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FragCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/DependInfo.cmake --color= @@ -6462,60 +6544,28 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 68%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/test1.cpp.o +[ 69%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/test1.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT 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-DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/MolSurf.cpp -[ 68%] Linking CXX executable filterCatalogTest +[ 69%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/AUTOCORR2D.cpp +[ 69%] Linking CXX executable filterCatalogTest cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/filterCatalogTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -[ 68%] Linking CXX executable testChemTransforms -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemTransforms.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 68%] Built target filterCatalogTest +[ 69%] Built target filterCatalogTest make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/DependInfo.cmake --color= -[ 68%] Built target testChemTransforms -make -f Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/depend Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/depend.internal". -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/DependInfo.cmake --color= Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/depend.internal". Scanning dependencies of target rdfragcatalog make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/depend.internal". make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -Scanning dependencies of target testMHFPFingerprint -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 68%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o +[ 69%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/rdfragcatalog.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/rdfragcatalog.cpp -[ 68%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Fingerprints/testMHFPFingerprint.cpp -[ 68%] Linking CXX executable testFragCatalog -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFragCatalog.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 68%] Built target testFragCatalog -make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend.internal". -Scanning dependencies of target testFingerprintGenerators -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 68%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/testFingerprintGenerators.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Fingerprints/testFingerprintGenerators.cpp -[ 68%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Lipinski.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/Lipinski.cpp +[ 69%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/Data3Ddescriptors.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/Data3Ddescriptors.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, @@ -6538,24 +6588,12 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 68%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o +[ 69%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /build/rdkit-202009.4/Code/GraphMol/Descriptors/MolData3Ddescriptors.cpp +[ 69%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/USRDescriptor.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/USRDescriptor.cpp +[ 69%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatalog.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragCatalog.cpp -[ 68%] Linking CXX executable testMHFPFingerprint -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMHFPFingerprint.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -o testMHFPFingerprint ../../../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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 68%] Built target testMHFPFingerprint -make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/depend.internal". -Scanning dependencies of target fpTestCatch -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 68%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Fingerprints/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, @@ -6577,17 +6615,67 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 68%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/ConnectivityDescriptors.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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-I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/EEM.cpp +[ 69%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/PBF.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/PBF.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/PBF.cpp +[ 69%] Linking CXX executable testMHFPFingerprint +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMHFPFingerprint.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testMHFPFingerprint.dir/testMHFPFingerprint.cpp.o -o testMHFPFingerprint ../../../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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 69%] Built target testMHFPFingerprint +make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints 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-I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragCatParams.cpp -[ 69%] Linking CXX executable testPropertyLists +[ 70%] Linking CXX executable testPropertyLists cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/testPropertyLists.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra 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"/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/depend.internal". +Scanning dependencies of target fpTestCatch +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 70%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/catch_tests.cpp.o +cd 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../../../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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 70%] Built target substructTestCatch make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 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CMakeFiles/substructTestCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragCatParams.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("") + | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 71%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/PMI.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/AUTOCORR3D.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/AUTOCORR3D.cpp +[ 71%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/FragCatGenerator.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragCatGenerator.cpp +[ 71%] Linking CXX executable fileParsersCatchTest +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 69%] Built target substructTestCatch +[ 71%] Built target fileParsersCatchTest make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/DependInfo.cmake --color= @@ -6613,9 +6728,10 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 69%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/test1.cpp.o +[ 71%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/test1.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolTransforms/test1.cpp -[ 70%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Property.cpp.o +[ 71%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/RDF.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -6630,19 +6746,27 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragCatParams.cpp:11: + from /build/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragCatGenerator.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( | ^~~~~~~~~~~~~~~~~~~~ -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/Property.cpp /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 71%] Linking CXX executable testFingerprintGenerators +[ 71%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MORSE.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/MORSE.cpp +[ 71%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragFPGenerator.cpp +[ 71%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/GETAWAY.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/GETAWAY.cpp +[ 71%] Linking CXX executable testMolTransforms +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testMolTransforms.dir/test1.cpp.o -o testMolTransforms ../../../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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 72%] Linking CXX executable testFingerprintGenerators +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFingerprintGenerators.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 71%] Built target testFingerprintGenerators +[ 72%] Built target testMolTransforms make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/DependInfo.cmake --color= @@ -6652,15 +6776,10 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 71%] Building CXX object Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o +[ 72%] Building CXX object Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/testMultiThread.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF/testMultiThread.cpp -[ 71%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragCatGenerator.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/FragCatGenerator.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragCatGenerator.cpp -[ 71%] Linking CXX executable fileParsersCatchTest -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 71%] Built target fileParsersCatchTest +[ 72%] Built target testFingerprintGenerators make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/DependInfo.cmake --color= @@ -6670,26 +6789,8 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 71%] Building CXX object Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o +[ 72%] Building CXX object Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/testMMFFHelpers.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF/testMMFFHelpers.cpp -[ 71%] Linking CXX executable chemTransformsTestCatch -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/chemTransformsTestCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 71%] Built target chemTransformsTestCatch -make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend.internal". -Scanning dependencies of target testUFFForceFieldHelpers -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 71%] Building CXX object Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF/testUFFHelpers.cpp -[ 71%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AUTOCORR2D.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -6704,18 +6805,36 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragCatGenerator.cpp:11: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 71%] Linking CXX executable testMolTransforms -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testMolTransforms.dir/test1.cpp.o -o testMolTransforms ../../../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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 72%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/WHIM.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/WHIM.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/WHIM.cpp +[ 72%] Linking CXX executable chemTransformsTestCatch +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/chemTransformsTestCatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 72%] Built target chemTransformsTestCatch +make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend.internal". +Scanning dependencies of target testUFFForceFieldHelpers +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 72%] Building CXX object Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/testUFFHelpers.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF/testUFFHelpers.cpp +[ 72%] Linking CXX shared module ../../../../rdkit/Chem/rdfragcatalog.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdfragcatalog.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 71%] Built target testMolTransforms +[ 72%] Built target rdfragcatalog make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/DependInfo.cmake --color= @@ -6725,17 +6844,13 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 71%] Building CXX object Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o +[ 72%] Building CXX object Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/testCrystalFF.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF/testCrystalFF.cpp -[ 71%] Linking CXX executable testMMFFForceFieldHelpersMultiThread +[ 72%] Linking CXX executable testMMFFForceFieldHelpersMultiThread cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -[ 71%] Building CXX object Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/FragFPGenerator.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap/FragFPGenerator.cpp make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 71%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/Data3Ddescriptors.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/Data3Ddescriptors.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/Data3Ddescriptors.cpp -[ 71%] Built target testMMFFForceFieldHelpersMultiThread +[ 72%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake --color= @@ -6745,36 +6860,13 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 71%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o +[ 72%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/testDgeomHelpers.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/testDgeomHelpers.cpp -[ 71%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MolData3Ddescriptors.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /build/rdkit-202009.4/Code/GraphMol/Descriptors/MolData3Ddescriptors.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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/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("") - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 71%] Linking CXX executable testCrystalForceField +[ 72%] Linking CXX executable testCrystalForceField cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCrystalForceField.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 71%] Built target testCrystalForceField +[ 72%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake --color= @@ -6784,15 +6876,13 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 71%] Building CXX object Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o +[ 72%] Building CXX object Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/rdDistGeom.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap && /usr/bin/c++ -DBOOST_PYTHON_MAX_ARITY=32 -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp -[ 71%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/USRDescriptor.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/USRDescriptor.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/USRDescriptor.cpp -[ 72%] Linking CXX executable testMMFFForceFieldHelpers +[ 73%] Linking CXX executable testMMFFForceFieldHelpers cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMFFForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 72%] Built target testMMFFForceFieldHelpers +[ 73%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/DependInfo.cmake --color= @@ -6802,13 +6892,13 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 72%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/testFeatures.cpp.o +[ 73%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/testFeatures.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testFeatures.dir/testFeatures.cpp.o -c 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../../../../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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so 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../../../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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 72%] Built target rdfragcatalog +[ 73%] Built target testFingerprints make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ShapeHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/DependInfo.cmake --color= @@ -6818,7 +6908,7 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 72%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o +[ 73%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/testShapeHelpers.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testShapeHelpers.dir/testShapeHelpers.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ShapeHelpers/testShapeHelpers.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, @@ -6841,13 +6931,11 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 72%] Linking CXX executable testUFFForceFieldHelpers +[ 73%] Linking CXX executable testUFFForceFieldHelpers cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF && /usr/bin/cmake -E cmake_link_script CMakeFiles/testUFFForceFieldHelpers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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/usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -[ 72%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/AtomFeat.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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-I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolCatalog/test1.cpp -[ 72%] Linking CXX executable testShapeHelpers +[ 73%] Linking CXX executable testShapeHelpers cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 72%] Built target testShapeHelpers -[ 72%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/EEM.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/EEM.cpp -[ 72%] Linking CXX executable testFingerprints -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFingerprints.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testFingerprints.dir/test1.cpp.o -o testFingerprints ../../../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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 72%] Built target testFingerprints +[ 73%] Built target testShapeHelpers make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FMCS /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/DependInfo.cmake --color= @@ -6880,22 +6961,8 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make 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-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/FMCS.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FMCS/FMCS.cpp -[ 72%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/PBF.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/PBF.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/PBF.cpp -In file included from /build/rdkit-202009.4/Code/GraphMol/Conformer.h:14, - from /build/rdkit-202009.4/Code/GraphMol/ROMol.h:36, - from /build/rdkit-202009.4/Code/GraphMol/GraphMol.h:19, - from /build/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:17: -/build/rdkit-202009.4/Code/Geometry/point.h: In function 'RDKit::INT_VECT RDKit::EmbedMultipleConfs(RDKit::ROMol&, unsigned int, unsigned int, int, bool, bool, double, bool, unsigned int, double, boost::python::dict&, double, bool, bool, int, bool, bool, bool, bool, bool, unsigned int)': -/build/rdkit-202009.4/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 87 | x = other.x; - | ~~~~~~^ -/build/rdkit-202009.4/Code/Geometry/point.h: In function 'int RDKit::EmbedMolecule(RDKit::ROMol&, unsigned int, int, bool, bool, double, bool, unsigned int, boost::python::dict&, double, bool, bool, bool, bool, bool, bool, bool, unsigned int)': -/build/rdkit-202009.4/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 87 | x = other.x; - | ~~~~~~^ 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, @@ -6904,11 +6971,11 @@ /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( | ^~~~~~~~~~~~~~~~~~~~ -[ 72%] Linking CXX executable testFeatures +[ 73%] Linking CXX executable testFeatures cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 72%] Built target testFeatures +[ 73%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MMPA /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/DependInfo.cmake --color= @@ -6918,16 +6985,22 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 72%] Linking CXX shared module ../../../../rdkit/Chem/rdDistGeom.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDistGeom.dir/link.txt --verbose=1 -[ 72%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/MMPA.cpp.o +[ 73%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/MMPA.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMMPA_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MMPA_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/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/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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -[ 73%] Linking CXX executable testMolCatalog -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolCatalog.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 73%] Built target rdDistGeom +In file included from /build/rdkit-202009.4/Code/GraphMol/Conformer.h:14, + from /build/rdkit-202009.4/Code/GraphMol/ROMol.h:36, + from /build/rdkit-202009.4/Code/GraphMol/GraphMol.h:19, + from /build/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap/rdDistGeom.cpp:17: +/build/rdkit-202009.4/Code/Geometry/point.h: In function 'RDKit::INT_VECT RDKit::EmbedMultipleConfs(RDKit::ROMol&, unsigned int, unsigned int, int, bool, bool, double, bool, unsigned int, double, boost::python::dict&, double, bool, bool, int, bool, bool, bool, bool, bool, unsigned int)': +/build/rdkit-202009.4/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 87 | x = other.x; + | ~~~~~~^ +/build/rdkit-202009.4/Code/Geometry/point.h: In function 'int RDKit::EmbedMolecule(RDKit::ROMol&, unsigned int, int, bool, bool, double, bool, unsigned int, boost::python::dict&, double, bool, bool, bool, bool, bool, bool, bool, unsigned int)': +/build/rdkit-202009.4/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 87 | x = other.x; + | ~~~~~~^ +[ 73%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/CoulombMat.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/CoulombMat.cpp make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Trajectory /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/DependInfo.cmake --color= @@ -6937,10 +7010,16 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 73%] Building CXX object Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/trajectoryTest.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Trajectory/trajectoryTest.cpp -[ 73%] Built target testMolCatalog +[ 73%] Linking CXX shared module ../../../../rdkit/Chem/rdDistGeom.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdDistGeom.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 74%] Linking CXX executable testMolCatalog +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolCatalog.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 74%] Built target rdDistGeom make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/DependInfo.cmake --color= @@ -6950,14 +7029,11 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 73%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/substructLibraryTest.dir/substructLibraryTest.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary/substructLibraryTest.cpp -[ 73%] Linking CXX executable fpTestCatch -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/fpTestCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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/usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 73%] Built target fpTestCatch +[ 74%] Built target testMolCatalog make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/depend +[ 74%] Building CXX object Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/substructLibraryTest.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/substructLibraryTest.dir/substructLibraryTest.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary/substructLibraryTest.cpp make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolInterchange /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/DependInfo.cmake --color= Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/depend.internal". @@ -6966,8 +7042,16 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 74%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/test1.cpp.o +[ 75%] Building CXX object Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/test1.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/rapidjson -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolInterchange/test1.cpp +[ 75%] Linking CXX executable fpTestCatch +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/fpTestCatch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 75%] Linking CXX executable testDistGeomHelpers +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 75%] Built target fpTestCatch make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake --color= @@ -6977,20 +7061,43 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 74%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o +[ 75%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/rdmolfiles.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/rdmolfiles.cpp -[ 74%] Linking CXX executable testDistGeomHelpers -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so 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+cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/MMPA.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 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, @@ -7009,72 +7116,259 @@ /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( | ^~~~~~~~~~~~~~~~~~~~ +cd /build/rdkit-202009.4/obj-aarch64-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 /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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 76%] Built target trajectoryTest -make -f Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/depend +[ 76%] Built target MMPA +make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Abbreviations /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/DependInfo.cmake --color= -Dependee 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'/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 76%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/__/catch_main.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/catch_main.cpp -[ 76%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/Seed.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FMCS/Seed.cpp -[ 76%] Linking CXX shared library ../../../lib/libRDKitMMPA.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/MMPA.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-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 +[ 76%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Descriptors/testCoulombMat.cpp +[ 77%] Linking CXX executable trajectoryTest +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory && /usr/bin/cmake -E cmake_link_script CMakeFiles/trajectoryTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 76%] Built target MMPA -[ 76%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DFMCS_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_FMCS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/FMCS/MaximumCommonSubgraph.cpp -[ 76%] Linking CXX executable substructLibraryTest +[ 77%] Built target trajectoryTest +make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend.internal". +Scanning dependencies of target testAUTOCORR3D +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 77%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Descriptors/testAUTOCORR3D.cpp +[ 77%] Linking CXX executable substructLibraryTest cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/substructLibraryTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 76%] Built target substructLibraryTest -make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend +[ 77%] Built target substructLibraryTest +make -f Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MMPA /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend.internal". -Scanning dependencies of target testMMPA +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/depend.internal". +Scanning dependencies of target testMORSE make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build +make -f Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 76%] Building CXX object Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/MMPA_UnitTest.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MMPA/MMPA_UnitTest.cpp -[ 76%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/RDF.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/RDF.cpp -[ 76%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/MORSE.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/MORSE.cpp -[ 76%] Linking CXX executable molInterchangeTest1 +[ 77%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/testMORSE.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testMORSE.dir/testMORSE.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/testMORSE.cpp +[ 77%] Linking 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Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MMPA/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend.internal". -Scanning dependencies of target rdMMPA +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/depend.internal". +Scanning dependencies of target testGETAWAY make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build +make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 77%] Building CXX object Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp -[ 77%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o +[ 77%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testGETAWAY.dir/testGETAWAY.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/testGETAWAY.cpp +[ 77%] Linking CXX executable testCoulombMat +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoulombMat.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/MDLParser.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemReactions/MDLParser.cpp +[ 77%] Linking CXX executable testAUTOCORR3D +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAUTOCORR3D.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -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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Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/testRDF.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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-o CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp +[ 81%] Linking CXX shared library ../../../lib/libRDKitFMCS.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/FMCS.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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,libRDKitFMCS.so.1 -o ../../../lib/libRDKitFMCS.so.1.2020.09.4 CMakeFiles/FMCS.dir/FMCS.cpp.o CMakeFiles/FMCS.dir/Seed.cpp.o CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o CMakeFiles/FMCS.dir/SubstructMatchCustom.cpp.o ../../../lib/libRDKitFileParsers.so.1.2020.09.4 ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 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"/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/depend.internal". +Scanning dependencies of target testWHIM +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 81%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/testWHIM.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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/build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/depend.internal". +Scanning dependencies of target rdMolDescriptors +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build 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, @@ -7088,59 +7382,76 @@ 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/rdkit-202009.4/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp:11: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 77%] Linking CXX executable testMMPA -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMPA.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so 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cmake_link_script CMakeFiles/testBCUT.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testBCUT.dir/testBCUT.cpp.o -o testBCUT ../../../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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 77%] Built target testMMPA -[ 77%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Abbreviations/catch_tests.cpp -[ 77%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/WHIM.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/WHIM.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/WHIM.cpp -[ 77%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/CoulombMat.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDescriptors_EXPORTS -DRDKIT_DESCRIPTORS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Descriptors/CoulombMat.cpp -[ 77%] Linking CXX shared module ../../../../rdkit/Chem/rdMMPA.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 81%] Built target testBCUT +make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/depend.internal". +Scanning dependencies of target testO3AAlign make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 77%] Built target rdMMPA -[ 78%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/ForwardSDMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp -[ 79%] Linking CXX shared library ../../../lib/libRDKitFMCS.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/FMCS.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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,libRDKitFMCS.so.1 -o ../../../lib/libRDKitFMCS.so.1.2020.09.4 CMakeFiles/FMCS.dir/FMCS.cpp.o CMakeFiles/FMCS.dir/Seed.cpp.o CMakeFiles/FMCS.dir/MaximumCommonSubgraph.cpp.o CMakeFiles/FMCS.dir/SubstructMatchCustom.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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so ../../../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/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitFMCS.so.1.2020.09.4 ../../../lib/libRDKitFMCS.so.1 ../../../lib/libRDKitFMCS.so +make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 81%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/testO3AAlign.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolAlign/testO3AAlign.cpp +[ 81%] Linking CXX executable testRDF +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 79%] Built target FMCS -make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend +[ 81%] Built target testRDF +make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FMCS /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend.internal". -Scanning dependencies of target testFMCS +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/depend.internal". +Scanning dependencies of target testMolAlign make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build +make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 79%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FMCS/testFMCS_Unit.cpp -make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend +[ 81%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/testMolAlign.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolAlign/testMolAlign.cpp +[ 81%] Linking CXX executable testDescriptors +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 /build/rdkit-202009.4/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp:22: +/build/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/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/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/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 && + | ~~^~~~~~~~~~~ +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 81%] Built target testDescriptors +make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FMCS/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend.internal". -Scanning dependencies of target rdFMCS +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/depend.internal". +Scanning dependencies of target rdMolAlign make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build +make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 79%] Building CXX object Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdFMCS_EXPORTS -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp +[ 81%] Building CXX object Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/rdMolAlign.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap/rdMolAlign.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, @@ -7154,27 +7465,32 @@ 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp:13: + from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/rdkit-202009.4/Code/GraphMol/Wrap/ForwardSDMolSupplier.cpp:22: -/build/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/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/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/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/Wrap/CMakeFiles/rdmolfiles.dir/MaeMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/MaeMolSupplier.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Wrap/MaeMolSupplier.cpp +[ 81%] Linking CXX executable testWHIM +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 81%] Built target testWHIM +make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FMCS /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend.internal". +Scanning dependencies of target testFMCS +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 81%] Building CXX object Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/testFMCS_Unit.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FMCS/testFMCS_Unit.cpp +[ 81%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionDepict.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -7189,13 +7505,22 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp:10: + from /build/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:14: /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/MaeMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/MaeMolSupplier.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Wrap/MaeMolSupplier.cpp +[ 81%] Building CXX object Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/catch_tests.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Abbreviations/catch_tests.cpp +[ 81%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionFingerprints.cpp +[ 81%] Linking CXX executable testMolAlign +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolAlign.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 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, @@ -7217,10 +7542,19 @@ /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/SDMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/SDMolSupplier.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Wrap/SDMolSupplier.cpp -[ 79%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/TDTMolSupplier.cpp +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 81%] Built target testMolAlign +make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FMCS/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend.internal". +Scanning dependencies of target rdFMCS +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 81%] Building CXX object Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DrdFMCS_EXPORTS -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdFMCS.dir/rdFMCS.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/FMCS/Wrap/rdFMCS.cpp In file included from /build/rdkit-202009.4/Code/GraphMol/Wrap/MaeMolSupplier.cpp:22: /build/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/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] @@ -7232,6 +7566,9 @@ /build/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 testO3AAlign +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/testO3AAlign.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 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, @@ -7246,13 +7583,80 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/TDTMolSupplier.cpp:12: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 81%] Built target testO3AAlign +make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FMCS/Test /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend.internal". +Scanning dependencies of target FMCStest +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 81%] Building CXX object Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/testFMCS.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FMCS/Test/testFMCS.cpp +[ 81%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionUtils.cpp +In file included from /build/rdkit-202009.4/Code/GraphMol/Conformer.h:14, + from /build/rdkit-202009.4/Code/GraphMol/ROMol.h:36, + from /build/rdkit-202009.4/Code/GraphMol/GraphMol.h:19, + from /build/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:12: +/build/rdkit-202009.4/Code/Geometry/point.h: In function 'boost::python::list {anonymous}::GetUSRDistributionsFromPoints(boost::python::api::object, boost::python::api::object)': +/build/rdkit-202009.4/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 87 | x = other.x; + | ~~~~~~^ +/build/rdkit-202009.4/Code/Geometry/point.h:88:15: warning: '*((void*)(&)+32).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] + 88 | y = other.y; + | ~~~~~~^ +/build/rdkit-202009.4/Code/Geometry/point.h:89:15: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] + 89 | z = other.z; + | ~~~~~~^ +/build/rdkit-202009.4/Code/Geometry/point.h: In function 'boost::python::list {anonymous}::GetUSRDistributions(boost::python::api::object, boost::python::api::object)': +/build/rdkit-202009.4/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] + 87 | x = other.x; + | ~~~~~~^ +/build/rdkit-202009.4/Code/Geometry/point.h:88:15: warning: '*((void*)(&)+32).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] + 88 | y = other.y; + | ~~~~~~^ +/build/rdkit-202009.4/Code/Geometry/point.h:89:15: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] + 89 | z = other.z; + | ~~~~~~^ +[ 81%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/SDMolSupplier.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Wrap/SDMolSupplier.cpp +[ 81%] Linking CXX shared module ../../../../rdkit/Chem/rdMolAlign.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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/usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 81%] Built target rdMolAlign +[ 81%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/TDTMolSupplier.cpp +[ 81%] Linking CXX executable testFMCS +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFMCS.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 81%] Built target testFMCS +make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolHash /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend.internal". +Scanning dependencies of target MolHash +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 81%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/hashfunctions.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolHash/hashfunctions.cpp +[ 81%] Linking CXX executable testAbbreviations +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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, @@ -7274,30 +7678,21 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 79%] Linking CXX executable testFMCS -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS && /usr/bin/cmake -E cmake_link_script CMakeFiles/testFMCS.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 79%] Built target testFMCS -make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend +[ 81%] Built target testAbbreviations +make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FMCS/Test /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend.internal". -Scanning dependencies of target FMCStest +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MMPA /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend.internal". +Scanning dependencies of target testMMPA make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build +make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 79%] Building CXX object Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/testFMCS.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/FMCS/Test/testFMCS.cpp -[ 79%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/SmilesMolSupplier.cpp -[ 79%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/SmilesWriter.cpp -[ 79%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/SDWriter.cpp -[ 79%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 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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 -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MMPA/MMPA_UnitTest.cpp +[ 82%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/MoleculeParser.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemReactions/MoleculeParser.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, @@ -7312,16 +7707,35 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/SmilesMolSupplier.cpp:13: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 79%] Linking CXX shared library ../../../lib/libRDKitDescriptors.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/Descriptors.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 +[ 82%] Linking CXX executable FMCStest +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test && /usr/bin/cmake -E cmake_link_script CMakeFiles/FMCStest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 82%] Built target FMCStest +make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MMPA/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend.internal". +Scanning dependencies of target rdMMPA +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 83%] Building CXX object Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/rdMMPA.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MMPA/Wrap/rdMMPA.cpp +[ 84%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/normalize.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolHash/normalize.cpp +[ 84%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionRunner.cpp +[ 84%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/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, @@ -7335,20 +7749,20 @@ 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/SmilesWriter.cpp:12: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 79%] Linking CXX shared module ../../../../rdkit/Chem/rdFMCS.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFMCS.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -cd /build/rdkit-202009.4/obj-aarch64-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 +[ 84%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SmilesWriter.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/SmilesWriter.cpp +[ 84%] Linking CXX executable testMMPA +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMMPA.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 79%] Built target Descriptors +[ 84%] Built target testMMPA make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/RGroupDecomposition /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/DependInfo.cmake --color= @@ -7358,21 +7772,15 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 79%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o +[ 84%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecomp.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/RGroupDecomp.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/RGroupDecomp.cpp -[ 79%] Built target rdFMCS -make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend.internal". -Scanning dependencies of target ChemReactions +[ 84%] Linking CXX shared module ../../../../rdkit/Chem/rdFMCS.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFMCS.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 80%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Reaction.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/Reaction.cpp +[ 84%] Built target rdFMCS +[ 84%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupUtils.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/RGroupUtils.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, @@ -7387,35 +7795,13 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/SDWriter.cpp:13: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/rdkit-202009.4/Code/GraphMol/Wrap/SmilesWriter.cpp:20: -/build/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/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/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/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/rdkit-202009.4/Code/GraphMol/Wrap/SDWriter.cpp:21: -/build/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/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/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/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, @@ -7430,30 +7816,31 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/TDTWriter.cpp:13: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 80%] Linking CXX executable testAbbreviations -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so +[ 84%] Linking CXX shared library ../../../lib/libRDKitMolHash.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolHash.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 80%] Built target testAbbreviations -make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend +[ 84%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend.internal". -Scanning dependencies of target testCoulombMat +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolHash /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend.internal". +Scanning dependencies of target molHashCatchTest make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build +make -f Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build.make Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 80%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/testCoulombMat.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Descriptors/testCoulombMat.cpp -In file included from /build/rdkit-202009.4/Code/GraphMol/Wrap/TDTWriter.cpp:21: +[ 84%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolHash/catch_tests.cpp +In file included from /build/rdkit-202009.4/Code/GraphMol/Wrap/SmilesWriter.cpp:20: /build/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/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) { @@ -7464,32 +7851,24 @@ /build/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 && | ~~^~~~~~~~~~~ -[ 80%] Linking CXX executable FMCStest -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test && /usr/bin/cmake -E cmake_link_script CMakeFiles/FMCStest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 +[ 84%] Linking CXX shared module ../../../../rdkit/Chem/rdMMPA.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 ../../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 80%] Built target FMCStest -make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend +[ 84%] Built target rdMMPA +make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend.internal". -Scanning dependencies of target testAUTOCORR3D +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolHash/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend.internal". +Scanning dependencies of target rdMolHash make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build +make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 80%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/testAUTOCORR3D.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/Descriptors/testAUTOCORR3D.cpp -[ 81%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/PDBWriter.cpp -[ 81%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp -[ 81%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp -[ 81%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MDLParser.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/MDLParser.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemReactions/MDLParser.cpp -[ 81%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DaylightParser.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/DaylightParser.cpp +[ 84%] Building CXX object Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolHash/Wrap/rdMolHash.cpp +[ 84%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupDecompParams.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/RGroupDecompParams.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, @@ -7504,27 +7883,28 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/PDBWriter.cpp:12: + from /build/rdkit-202009.4/Code/GraphMol/MolHash/Wrap/rdMolHash.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 81%] Linking CXX executable testCoulombMat -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testCoulombMat.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 81%] Built target testCoulombMat -make -f Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/depend.internal". -Scanning dependencies of target testMORSE +[ 84%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/SDWriter.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/SDWriter.cpp +[ 84%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/TDTWriter.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/TDTWriter.cpp +[ 84%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/PreprocessRxn.cpp +[ 84%] Linking CXX shared module ../../../../rdkit/Chem/rdMolHash.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 84%] Built target rdMolHash +[ 84%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/RGroupScore.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_RGROUPDECOMPOSITION_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/RGroupScore.cpp +[ 84%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/SanitizeRxn.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/SanitizeRxn.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, @@ -7539,12 +7919,10 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp:13: + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ -[ 81%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/testMORSE.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testMORSE.dir/testMORSE.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/testMORSE.cpp /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ @@ -7562,42 +7940,21 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp:13: + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 81%] Linking CXX executable testAUTOCORR3D -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAUTOCORR3D.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 /build/rdkit-202009.4/Code/GraphMol/Wrap/PDBWriter.cpp:20: -/build/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/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/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/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 && - | ~~^~~~~~~~~~~ -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 81%] Built target testAUTOCORR3D -make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/depend.internal". -Scanning dependencies of target testGETAWAY +[ 84%] Linking CXX shared module ../../../../rdkit/Chem/rdMolDescriptors.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolDescriptors.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 81%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/testGETAWAY.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testGETAWAY.dir/testGETAWAY.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Descriptors/testGETAWAY.cpp -In file included from /build/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedMolSupplier.h:15, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp:23: +[ 84%] Built target rdMolDescriptors +[ 85%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/PDBWriter.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/PDBWriter.cpp +In file included from /build/rdkit-202009.4/Code/GraphMol/Wrap/SDWriter.cpp:21: /build/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/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) { @@ -7608,8 +7965,7 @@ /build/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/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedMolSupplier.h:15, - from /build/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp:23: +In file included from /build/rdkit-202009.4/Code/GraphMol/Wrap/TDTWriter.cpp:21: /build/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/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) { @@ -7620,230 +7976,13 @@ /build/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 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-I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionPickler.cpp -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 81%] Built target rdmolfiles -make -f Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu 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--verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so 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../../../lib/libRDKitAlignment.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 +[ 85%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSmilesMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp +[ 85%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PNGParser.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/PNGParser.cpp +[ 86%] Linking CXX shared library ../../../lib/libRDKitRGroupDecomposition.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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, @@ -7857,35 +7996,17 @@ 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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:10: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 83%] Built target testWHIM -make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolHash /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend.internal". -Scanning dependencies of target MolHash -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 83%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/hashfunctions.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolHash_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLHASH_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolHash/hashfunctions.cpp -[ 84%] Linking CXX shared library ../../../lib/libRDKitRGroupDecomposition.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so -[ 84%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionFingerprints.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK 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/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 84%] Built target RGroupDecomposition +[ 86%] Built target RGroupDecomposition make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/RGroupDecomposition /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake --color= @@ -7895,7 +8016,7 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 84%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o +[ 86%] Building CXX object Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/testRGroupDecomp.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.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, @@ -7911,18 +8032,26 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap/rdMolAlign.cpp:14: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 84%] Linking CXX executable testMolAlign -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMolAlign.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 84%] Built target testMolAlign +In file included from /build/rdkit-202009.4/Code/GraphMol/Wrap/PDBWriter.cpp:20: +/build/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/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/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/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%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/MultithreadedSDMolSupplier.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake --color= @@ -7932,19 +8061,24 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 84%] Building CXX object Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o +[ 86%] Building CXX object Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/rdRGroupComposition.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp -[ 84%] Linking CXX executable testDescriptors -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so 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-DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolHash/normalize.cpp -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 85%] Built target testDescriptors -[ 85%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionUtils.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionUtils.cpp -[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/MoleculeParser.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/MoleculeParser.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemReactions/MoleculeParser.cpp +In file included from /build/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedMolSupplier.h:15, + from /build/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSmilesMolSupplier.cpp:23: +/build/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/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/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/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%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/Enumerate.cpp +[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/EnumerationPickler.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, @@ -7959,101 +8093,15 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp:32: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 86%] Linking CXX executable testO3AAlign -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/testO3AAlign.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 86%] Built target testO3AAlign -[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/ReactionRunner.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/ReactionRunner.cpp -In file included from /build/rdkit-202009.4/Code/GraphMol/Conformer.h:14, - from /build/rdkit-202009.4/Code/GraphMol/ROMol.h:36, - from /build/rdkit-202009.4/Code/GraphMol/GraphMol.h:19, - from /build/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap/rdMolDescriptors.cpp:12: -/build/rdkit-202009.4/Code/Geometry/point.h: In function 'boost::python::list {anonymous}::GetUSRDistributionsFromPoints(boost::python::api::object, boost::python::api::object)': -/build/rdkit-202009.4/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 87 | x = other.x; - | ~~~~~~^ -/build/rdkit-202009.4/Code/Geometry/point.h:88:15: warning: '*((void*)(&)+32).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] - 88 | y = other.y; - | ~~~~~~^ -/build/rdkit-202009.4/Code/Geometry/point.h:89:15: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] - 89 | z = other.z; - | ~~~~~~^ -/build/rdkit-202009.4/Code/Geometry/point.h: In function 'boost::python::list {anonymous}::GetUSRDistributions(boost::python::api::object, boost::python::api::object)': -/build/rdkit-202009.4/Code/Geometry/point.h:87:15: warning: '*((void*)(&)+32).RDGeom::Point3D::x' may be used uninitialized in this function [-Wmaybe-uninitialized] - 87 | x = other.x; - | ~~~~~~^ -/build/rdkit-202009.4/Code/Geometry/point.h:88:15: warning: '*((void*)(&)+32).RDGeom::Point3D::y' may be used uninitialized in this function [-Wmaybe-uninitialized] - 88 | y = other.y; - | ~~~~~~^ -/build/rdkit-202009.4/Code/Geometry/point.h:89:15: warning: '*((void*)(&)+32).RDGeom::Point3D::z' may be used uninitialized in this function [-Wmaybe-uninitialized] - 89 | z = other.z; - | ~~~~~~^ -In file included from /build/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp:47: -/build/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/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/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/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%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PreprocessRxn.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/PreprocessRxn.cpp -[ 86%] Linking CXX shared library ../../../lib/libRDKitMolHash.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolHash.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/SanitizeRxn.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/SanitizeRxn.cpp -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolHash /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend.internal". -Scanning dependencies of target molHashCatchTest -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build.make Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 86%] Building CXX object Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/catch_tests.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolHash/catch_tests.cpp -[ 86%] Linking CXX shared module ../../../../rdkit/Chem/rdMolAlign.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolAlign.dir/link.txt --verbose=1 -[ 86%] Linking CXX executable testRGroupDecomp -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRGroupDecomp.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -o testRGroupDecomp ../../../lib/libRDKitRGroupDecomposition.so.1.2020.09.4 ../../../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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 86%] Built target testRGroupDecomp -make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolHash/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake --color= -[ 86%] Built target rdMolAlign -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend.internal". -Scanning dependencies of target rdMolHash -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/PNGParser.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/PNGParser.cpp -[ 86%] Building CXX object Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/rdMolHash.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolHash/Wrap/rdMolHash.cpp -[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/Enumerate.cpp +[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.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, @@ -8068,27 +8116,51 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/MolHash/Wrap/rdMolHash.cpp:10: + from /build/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/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedMolSupplier.h:15, + from /build/rdkit-202009.4/Code/GraphMol/Wrap/MultithreadedSDMolSupplier.cpp:23: +/build/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/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/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/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/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap/rdRGroupComposition.cpp:47: +/build/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/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/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/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 shared module ../../../rdkit/Chem/rdmolfiles.so +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -ldl /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so -lpthread +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 86%] Built target rdmolfiles +[ 86%] Linking CXX executable testRGroupDecomp +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition && /usr/bin/cmake -E cmake_link_script CMakeFiles/testRGroupDecomp.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testRGroupDecomp.dir/testRGroupDecomp.cpp.o -o testRGroupDecomp ../../../lib/libRDKitRGroupDecomposition.so.1.2020.09.4 ../../../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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 86%] Built target testRGroupDecomp [ 86%] Linking CXX shared module ../../../../rdkit/Chem/rdRGroupDecomposition.so cd 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Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 86%] Built target rdRGroupDecomposition -[ 86%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DChemReactions_EXPORTS -DRDKIT_CHEMREACTIONS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat 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-I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/EvenSamplePairs.cpp -[ 86%] Linking CXX shared module ../../../../rdkit/Chem/rdMolHash.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so ../../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 86%] Built target rdMolHash [ 87%] Linking CXX shared library ../../../lib/libRDKitChemReactions.so cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemReactions.dir/link.txt --verbose=1 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CMakeFiles/ChemReactions.dir/PNGParser.cpp.o CMakeFiles/ChemReactions.dir/Enumerate/Enumerate.cpp.o CMakeFiles/ChemReactions.dir/Enumerate/EnumerationPickler.cpp.o CMakeFiles/ChemReactions.dir/Enumerate/EvenSamplePairs.cpp.o ../../../lib/libRDKitFilterCatalog.so.1.2020.09.4 ../../../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 /usr/lib/aarch64-linux-gnu/libboost_serialization.so ../../../lib/libRDKitCatalogs.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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/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 @@ -8096,71 +8168,82 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 87%] Built target ChemReactions make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/depend -make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend -make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend -make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/DependInfo.cmake --color= +make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake --color= -make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend +make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/DependInfo.cmake --color= +make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake --color= +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/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend cd 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"/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend.internal". 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Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend.internal". Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend.internal". Scanning dependencies of target testReactionFingerprints +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend.internal". +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build Scanning dependencies of target testReaction make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend.internal". make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend.internal". -Scanning dependencies of target testEnumeration make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +Scanning dependencies of target testEnumeration make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' Scanning dependencies of target rxnTestCatch +[ 87%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemReactions/testReactionFingerprints.cpp +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' Scanning dependencies of target rdChemReactions make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 87%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/testReactionFingerprints.cpp.o [ 87%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/testReaction.cpp.o +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testReaction.dir/testReaction.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemReactions/testReaction.cpp -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testReactionFingerprints.dir/testReactionFingerprints.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemReactions/testReactionFingerprints.cpp +[ 87%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/testEnumerate.cpp [ 87%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/catch_tests.cpp.o +[ 87%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rxnTestCatch.dir/catch_tests.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemReactions/catch_tests.cpp +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/Enumerate.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp Scanning dependencies of target MolStandardize make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build -[ 87%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/Enumerate.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/Enumerate.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemReactions/Wrap/Enumerate.cpp make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 87%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/testEnumeration.dir/Enumerate/testEnumerate.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/ChemReactions/Enumerate/testEnumerate.cpp [ 87%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/MolStandardize.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/MolStandardize.cpp +Scanning dependencies of target MolDraw2D +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 87%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -8181,22 +8264,6 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 87%] Linking CXX shared module ../../../../rdkit/Chem/rdMolDescriptors.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolDescriptors.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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../../../../lib/libRDKitDataStructs.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 87%] Built target rdMolDescriptors -make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend.internal". -Scanning dependencies of target MolDraw2D -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 87%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2D.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2D.cpp [ 87%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Metal.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Metal.cpp [ 87%] Linking CXX executable testReactionFingerprints @@ -8250,21 +8317,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 88%] Building CXX object Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/deprotectTest.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DEPROTECT_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/deprotectTest.dir/deprotectTest.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Deprotect/deprotectTest.cpp -[ 88%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolEnumerator/PositionVariation.cpp -[ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Validate.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Validate.cpp -[ 89%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolEnumerator/LinkNode.cpp -[ 90%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp -[ 91%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DSVG.cpp -[ 91%] Linking CXX executable molHashCatchTest +[ 88%] Linking CXX executable molHashCatchTest cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so ../../../lib/libRDKitSubstructMatch.so.1.2020.09.4 /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 91%] Built target molHashCatchTest +[ 88%] Built target molHashCatchTest make -f Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build.make Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DependInfo.cmake --color= @@ -8274,8 +8331,10 @@ make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build.make Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 91%] Building CXX object Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o +[ 88%] Building CXX object Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/rdDeprotect.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DEPROTECT_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdDeprotect.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap/rdDeprotect.cpp +[ 88%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolEnumerator/PositionVariation.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, @@ -8283,19 +8342,23 @@ 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/rdkit-202009.4/Code/Numerics/Vector.h:23, - from /build/rdkit-202009.4/Code/Geometry/point.h:24, - from /build/rdkit-202009.4/Code/GraphMol/MolPickler.h:14, - from /build/rdkit-202009.4/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.cpp:32: + 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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap/rdDeprotect.h:15, + from /build/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap/rdDeprotect.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 91%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Charge.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /build/rdkit-202009.4/Code/GraphMol/MolStandardize/Charge.cpp +[ 88%] Building CXX object Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DEPROTECT_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap/DeprotectWrap.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, @@ -8309,34 +8372,22 @@ 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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap/rdDeprotect.h:15, - from /build/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap/rdDeprotect.cpp:10: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap/DeprotectWrap.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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 91%] Building CXX object Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DeprotectWrap.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DEPROTECT_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap/DeprotectWrap.cpp -[ 91%] Linking CXX shared library ../../../lib/libRDKitMolEnumerator.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolEnumerator.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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,libRDKitMolEnumerator.so.1 -o ../../../lib/libRDKitMolEnumerator.so.1.2020.09.4 CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o ../../../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/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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.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/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/aarch64-linux-gnu/libboost_serialization.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolEnumerator.so.1.2020.09.4 ../../../lib/libRDKitMolEnumerator.so.1 ../../../lib/libRDKitMolEnumerator.so -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 91%] Built target MolEnumerator -make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolEnumerator /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend.internal". -Scanning dependencies of target testMolEnumerator -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 91%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/catch_main.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolEnumerator/catch_main.cpp +[ 89%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Validate.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Validate.cpp +[ 90%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DSVG.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DSVG.cpp +[ 90%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolEnumerator_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLENUMERATOR_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolEnumerator/LinkNode.cpp +[ 91%] Building CXX object Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/rdChemReactions.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.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, @@ -8344,14 +8395,11 @@ 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap/DeprotectWrap.cpp:10: + from /usr/include/boost/smart_ptr.hpp:19, + from /build/rdkit-202009.4/Code/Numerics/Vector.h:23, + from /build/rdkit-202009.4/Code/Geometry/point.h:24, + from /build/rdkit-202009.4/Code/GraphMol/MolPickler.h:14, + from /build/rdkit-202009.4/Code/GraphMol/ChemReactions/Wrap/rdChemReactions.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( | ^~~~~~~~~~~~~~~~~~~~ @@ -8360,26 +8408,34 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ [ 91%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DDetails.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DDetails.cpp -[ 91%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Tautomer.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Tautomer.cpp -[ 91%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DUtils.cpp [ 91%] Linking CXX shared module ../../../../rdkit/Chem/rdDeprotect.so cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +[ 91%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Charge.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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 /build/rdkit-202009.4/Code/GraphMol/MolStandardize/Charge.cpp make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 91%] Built target rdDeprotect -make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/depend +[ 91%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Tautomer.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Tautomer.cpp +[ 91%] Linking CXX shared library ../../../lib/libRDKitMolEnumerator.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolEnumerator.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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,libRDKitMolEnumerator.so.1 -o ../../../lib/libRDKitMolEnumerator.so.1.2020.09.4 CMakeFiles/MolEnumerator.dir/MolEnumerator.cpp.o CMakeFiles/MolEnumerator.dir/PositionVariation.cpp.o CMakeFiles/MolEnumerator.dir/LinkNode.cpp.o ../../../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/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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/libRDKitSubstructMatch.so.1.2020.09.4 ../../../lib/libRDKitSmilesParse.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/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl /usr/lib/aarch64-linux-gnu/libboost_serialization.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libRDKitMolEnumerator.so.1.2020.09.4 ../../../lib/libRDKitMolEnumerator.so.1 ../../../lib/libRDKitMolEnumerator.so +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 91%] Built target MolEnumerator +make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolEnumerator/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/depend.internal". -Scanning dependencies of target rdMolEnumerator +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolEnumerator /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend.internal". +Scanning dependencies of target testMolEnumerator make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 91%] Building CXX object Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/rdMolEnumerator.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolEnumerator/Wrap/rdMolEnumerator.cpp +[ 91%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/catch_main.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolEnumerator/catch_main.cpp +[ 91%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DUtils.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DUtils.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, @@ -8395,77 +8451,81 @@ /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, - 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/MolEnumerator/Wrap/rdMolEnumerator.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("") - | ^~~~~~~~~~~~~~~~~~~~~~~ [ 91%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/Fragment.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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../../../../lib/libRDKitFingerprints.so.1.2020.09.4 ../../../../lib/libRDKitSubgraphs.so.1.2020.09.4 /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 91%] Built target rxnTestCatch [ 91%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/FragmentCatalog/FragmentCatalogEntry.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK 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-I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/FragmentCatalogParams.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/MolStandardize/FragmentCatalog/FragmentCatalogParams.cpp +[ 91%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawText.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_FREETYPE_SUPPORT -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 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-I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawTextJS.cpp -[ 91%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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 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../../../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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' [ 92%] Built target deprotectTest -[ 92%] Building CXX object Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/enumerator_catch.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/AcidBaseCatalog/AcidBaseCatalogUtils.cpp +[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/MolDraw2DJS.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/MolDraw2DJS.cpp +[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextJS.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawTextJS.cpp +[ 92%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFT.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawTextFT.cpp [ 93%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTSVG.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawTextFTSVG.cpp -[ 93%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogEntry.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogEntry.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/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/rdkit-202009.4/Code/GraphMol/MolEnumerator/Wrap/rdMolEnumerator.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("") + | ^~~~~~~~~~~~~~~~~~~~~~~ [ 93%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogParams.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/TransformCatalog/TransformCatalogParams.cpp [ 93%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TransformCatalog/TransformCatalogUtils.cpp.o @@ -8474,6 +8534,8 @@ cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogEntry.cpp [ 93%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DrawTextFTJS.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolDraw2D_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLDRAW2D_BUILD -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/DrawTextFTJS.cpp +[ 93%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.cpp [ 93%] Linking CXX shared library ../../../lib/libRDKitMolDraw2D.so cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolDraw2D.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libboost_serialization.so @@ -8491,15 +8553,13 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 93%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/rxn_test1.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolDraw2D/rxn_test1.cpp -[ 93%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogParams.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogParams.cpp [ 93%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/TautomerCatalog/TautomerCatalogUtils.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DMolStandardize_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_MOLSTANDARDIZE_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/TautomerCatalog/TautomerCatalogUtils.cpp -[ 93%] Linking CXX executable testReaction -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/testReaction.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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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/usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libboost_serialization.so +[ 93%] Linking CXX shared module ../../../../rdkit/Chem/rdMolEnumerator.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMolEnumerator.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 93%] Built target testReaction +[ 93%] Built target rdMolEnumerator make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake --color= @@ -8524,11 +8584,6 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 94%] Building CXX object Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/test1.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolDraw2D/test1.cpp -[ 94%] Linking CXX executable testMolEnumerator -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 94%] Built target testMolEnumerator make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake --color= @@ -8540,6 +8595,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 94%] Building CXX object Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/rdMolDraw2D.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp +[ 94%] Linking CXX executable moldraw2DRxnTest1 +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DRxnTest1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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../../../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/aarch64-linux-gnu/libfreetype.so +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 94%] Built target moldraw2DRxnTest1 make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake --color= @@ -8551,15 +8611,18 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 94%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/rdmolops.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/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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-fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/MolOps.cpp -[ 94%] Linking CXX executable moldraw2DRxnTest1 -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DRxnTest1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so 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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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_serialization.so make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 94%] Built target moldraw2DRxnTest1 -[ 94%] Building CXX 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-fPIC -fPIC -std=gnu++11 -o CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/Wrap/ChiralityOps.cpp +[ 95%] Built target testReaction +[ 95%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/MolOps.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/MolOps.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, @@ -8581,6 +8644,20 @@ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 95%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend.internal". +Scanning dependencies of target TautomerQuery +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 95%] Building CXX object Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_TAUTOMERQUERY_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -8602,9 +8679,8 @@ /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/libRDKitMolStandardize.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_serialization.so +[ 95%] Building CXX object Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/ChiralityOps.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -isystem /usr/include/freetype2 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/Wrap/ChiralityOps.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, @@ -8623,34 +8699,20 @@ /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( | ^~~~~~~~~~~~~~~~~~~~ -cd /build/rdkit-202009.4/obj-aarch64-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 /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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 95%] 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/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend.internal". -Scanning dependencies of target TautomerQuery -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 95%] Building CXX object Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/TautomerQuery.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDKIT_TAUTOMERQUERY_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/TautomerQuery/TautomerQuery.cpp -make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend.internal". -Scanning dependencies of target molStandardizeTest -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/test1.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolStandardize/test1.cpp +In file included from /build/rdkit-202009.4/Code/GraphMol/Wrap/MolOps.cpp:30: +/build/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/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/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/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, @@ -8672,17 +8734,22 @@ /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/rdkit-202009.4/Code/GraphMol/Wrap/MolOps.cpp:30: -/build/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/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/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/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 && - | ~~^~~~~~~~~~~ +[ 95%] Linking CXX executable testMolEnumerator +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 95%] Built target testMolEnumerator +make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend.internal". +Scanning dependencies of target molStandardizeTest +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/test1.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolStandardize/test1.cpp [ 96%] Linking CXX shared library ../../../lib/libRDKitTautomerQuery.so cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_link_script CMakeFiles/TautomerQuery.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 @@ -8700,17 +8767,6 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/testNormalize.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/molNormalizeTest.dir/testNormalize.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/MolStandardize/testNormalize.cpp -make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend.internal". -Scanning dependencies of target molValidateTest -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/testValidate.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/molValidateTest.dir/testValidate.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/MolStandardize/testValidate.cpp In file included from /build/rdkit-202009.4/Code/GraphMol/Conformer.h:14, from /build/rdkit-202009.4/Code/GraphMol/ROMol.h:36, from /build/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap/rdMolDraw2D.cpp:17: @@ -8721,11 +8777,17 @@ /build/rdkit-202009.4/Code/Geometry/point.h:269:69: warning: '*((void*)(&)+32).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) {} | ~~~~~~^ -[ 96%] Linking CXX executable molStandardizeTest -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend.internal". +Scanning dependencies of target molValidateTest make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 96%] Built target molStandardizeTest +make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/testValidate.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/molValidateTest.dir/testValidate.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/MolStandardize/testValidate.cpp make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/DependInfo.cmake --color= @@ -8737,6 +8799,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/testCharge.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolStandardize/testCharge.cpp +[ 96%] Linking CXX executable molNormalizeTest +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molNormalizeTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 96%] Built target molNormalizeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/DependInfo.cmake --color= @@ -8764,11 +8831,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/testTautomer.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolStandardize/testTautomer.cpp -[ 96%] Linking CXX executable molNormalizeTest -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molNormalizeTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 +[ 96%] Linking CXX executable molStandardizeTest +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 96%] Built target molNormalizeTest +[ 96%] Built target molStandardizeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake --color= @@ -8796,11 +8863,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 96%] Building CXX object Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/test2.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/MolStandardize/test2.cpp -[ 96%] Linking CXX executable molChargeTest -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molChargeTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 +[ 96%] Linking CXX executable molFragmentTest +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molFragmentTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 96%] Built target molChargeTest +[ 96%] Built target molFragmentTest make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/DependInfo.cmake --color= @@ -8812,11 +8879,11 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 96%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/rdMolStandardize.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdMolStandardize.cpp.o -c /build/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/rdMolStandardize.cpp -[ 96%] Linking CXX executable molFragmentTest -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molFragmentTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 +[ 96%] Linking CXX executable molChargeTest +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molChargeTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libboost_serialization.so ../../../lib/libRDKitChemTransforms.so.1.2020.09.4 ../../../lib/libRDKitDescriptors.so.1.2020.09.4 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../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 96%] Built target molFragmentTest +[ 96%] Built target molChargeTest make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/DependInfo.cmake --color= @@ -8844,9 +8911,33 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 98%] Building CXX object Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/catch_tests.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/TautomerQuery/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/args.hpp:22, + from /usr/include/boost/python.hpp:11, + from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/rdMolStandardize.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 molStandardizeSmallTest cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeSmallTest.dir/link.txt --verbose=1 +[ 98%] Linking CXX shared module ../../../rdkit/Chem/rdmolops.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdmolops.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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../../../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 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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 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../../../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/aarch64-linux-gnu/libfreetype.so /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 98%] Built target molStandardizeSmallTest make -f Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/depend @@ -8860,6 +8951,19 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 98%] Building CXX object Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/rdTautomerQuery.cpp.o cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/TautomerQuery/Wrap/rdTautomerQuery.cpp +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 98%] Built target rdmolops +[ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Validate.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g 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/usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-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 +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 99%] Built target moldraw2DTestCatch +[ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Charge.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Charge.cpp +[ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Fragment.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, @@ -8874,7 +8978,7 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/rdMolStandardize.cpp:10: + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ @@ -8895,22 +8999,13 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/GraphMol/TautomerQuery/Wrap/rdTautomerQuery.cpp:13: + from /build/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Validate.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 shared module ../../../rdkit/Chem/rdmolops.so -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libfreetype.so /usr/lib/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 98%] Built target rdmolops -[ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Validate.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Validate.cpp -[ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Charge.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Charge.cpp [ 99%] Linking CXX shared library ../../../lib/libRDKitScaffoldNetwork.so cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/cmake -E cmake_link_script CMakeFiles/ScaffoldNetwork.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 @@ -8942,29 +9037,13 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Validate.cpp:10: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 99%] Linking CXX executable moldraw2DTestCatch -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D && /usr/bin/cmake -E cmake_link_script CMakeFiles/moldraw2DTestCatch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-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 -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 99%] Built target moldraw2DTestCatch -make -f Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake --color= -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend.internal". -Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend.internal". -Scanning dependencies of target rdScaffoldNetwork -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 99%] Building CXX object Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -8979,13 +9058,42 @@ from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Charge.cpp:10: + from /build/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("") | ^~~~~~~~~~~~~~~~~~~~~~~ +[ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Normalize.cpp +[ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Metal.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Metal.cpp +[ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Tautomer.cpp +[ 99%] Linking CXX executable molTautomerTest +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molTautomerTest.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 99%] Built target molTautomerTest +make -f Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake --color= +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend.internal". +Dependee "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/depend.internal". +Scanning dependencies of target rdScaffoldNetwork +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 99%] Building CXX object Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/rdScaffoldNetwork.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap/rdScaffoldNetwork.cpp +[ 99%] Linking CXX shared module ../../../../rdkit/Chem/rdTautomerQuery.so +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdTautomerQuery.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 99%] Built target rdTautomerQuery +[ 99%] Building CXX object Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/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, @@ -8999,32 +9107,14 @@ 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/rdkit-202009.4/Code/RDBoost/python.h:3, - from /build/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap/rdScaffoldNetwork.cpp:11: + from /build/rdkit-202009.4/Code/RDBoost/Wrap.h:20, + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ /usr/include/boost/detail/iterator.hpp:13:1: note: '#pragma message: This header is deprecated. Use instead.' 13 | BOOST_HEADER_DEPRECATED("") | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 99%] Linking CXX shared module ../../../../rdkit/Chem/rdTautomerQuery.so -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdTautomerQuery.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 99%] Built target rdTautomerQuery -[ 99%] Building CXX object Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/catch_tests.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -I/usr/include/catch2 -I/build/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/catch_tests.cpp -[ 99%] Linking CXX executable molTautomerTest -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molTautomerTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 99%] Built target molTautomerTest -[ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Fragment.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Fragment.cpp -[ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Normalize.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Normalize.cpp -[ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Metal.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/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, @@ -9036,16 +9126,17 @@ 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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/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( - | ^~~~~~~~~~~~~~~~~~~~ + 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/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, @@ -9059,8 +9150,8 @@ 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/rdkit-202009.4/Code/RDBoost/Wrap.h:20, - from /build/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Fragment.cpp:10: + from /build/rdkit-202009.4/Code/RDBoost/python.h:3, + from /build/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( | ^~~~~~~~~~~~~~~~~~~~ @@ -9093,30 +9184,6 @@ /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 99%] Built target rdScaffoldNetwork -[ 99%] Building CXX object Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/Tautomer.cpp.o -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap && /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_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/rdkit-202009.4/External -I/usr/include/python3.9 -I/usr/lib/python3/dist-packages/numpy/core/include -I/build/rdkit-202009.4/Code -I/build/rdkit-202009.4/External/boost-numeric-bindings -isystem /usr/include/eigen3 -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=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/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap/Tautomer.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/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/MolStandardize/rdMolStandardize.so cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/aarch64-linux-gnu/libpython3.9.so /usr/lib/aarch64-linux-gnu/libboost_python39.so ../../../../lib/libRDKitRDGeneral.so.1.2020.09.4 -lpthread -ldl @@ -9125,18 +9192,18 @@ [ 99%] Linking CXX executable molStandardizeCatchTest cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize && /usr/bin/cmake -E cmake_link_script CMakeFiles/molStandardizeCatchTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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 +[ 99%] Linking CXX executable testScaffoldNetwork +cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' [ 99%] Built target molStandardizeCatchTest +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 99%] Built target testScaffoldNetwork [100%] Linking CXX executable tautomerQueryTestCatch cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery && /usr/bin/cmake -E cmake_link_script CMakeFiles/tautomerQueryTestCatch.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' [100%] Built target tautomerQueryTestCatch -[100%] Linking CXX executable testScaffoldNetwork -cd /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4=. -fstack-protector-strong -Wformat -Werror=format-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/aarch64-linux-gnu/libcoordgen.so /usr/lib/aarch64-linux-gnu/libmaeparser.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-linux-gnu/libboost_system.so /usr/lib/aarch64-linux-gnu/libboost_iostreams.so /usr/lib/aarch64-linux-gnu/libboost_regex.so /usr/lib/aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -[100%] Built target testScaffoldNetwork make[3]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/rdkit-202009.4/obj-aarch64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' @@ -16961,435 +17028,383 @@ Start 6: testDataStructs Start 7: testFPB Start 8: testMultiFPB - 1/190 Test #4: testRDValue ............................ Passed 0.15 sec + 1/190 Test #4: testRDValue ............................ Passed 0.06 sec Start 9: pyBV - 2/190 Test #6: testDataStructs ........................ Passed 0.17 sec + 2/190 Test #6: testDataStructs ........................ Passed 0.05 sec Start 10: pyDiscreteValueVect - 3/190 Test #7: testFPB ................................ Passed 0.15 sec + 3/190 Test #7: testFPB ................................ Passed 0.05 sec Start 11: pySparseIntVect - 4/190 Test #8: testMultiFPB ........................... Passed 0.19 sec + 4/190 Test #8: testMultiFPB ........................... Passed 0.10 sec Start 12: pyFPB - 5/190 Test #11: pySparseIntVect ........................ Passed 1.44 sec + 5/190 Test #1: testCoordGen ........................... Passed 1.03 sec Start 13: testTransforms - 6/190 Test #13: testTransforms ......................... Passed 0.19 sec + 6/190 Test #11: pySparseIntVect ........................ Passed 0.92 sec Start 14: testGrid - 7/190 Test #14: testGrid ............................... Passed 0.25 sec + 7/190 Test #13: testTransforms ......................... Passed 0.02 sec Start 15: geometryTestsCatch - 8/190 Test #15: geometryTestsCatch ..................... Passed 0.06 sec + 8/190 Test #15: geometryTestsCatch ..................... Passed 0.02 sec Start 16: testPyGeometry - 9/190 Test #10: pyDiscreteValueVect .................... Passed 2.73 sec + 9/190 Test #14: testGrid ............................... Passed 0.05 sec Start 17: testMatrices - 10/190 Test #17: testMatrices ........................... Passed 0.03 sec + 10/190 Test #17: testMatrices ........................... Passed 0.01 sec Start 18: testConrec - 11/190 Test #18: testConrec ............................. Passed 0.14 sec + 11/190 Test #18: testConrec ............................. Passed 0.02 sec Start 19: testAlignment - 12/190 Test #19: testAlignment .......................... Passed 0.03 sec + 12/190 Test #19: testAlignment .......................... Passed 0.01 sec Start 20: pyAlignment - 13/190 Test #12: pyFPB .................................. Passed 2.90 sec + 13/190 Test #10: pyDiscreteValueVect .................... Passed 1.20 sec Start 21: testOptimizer - 14/190 Test #21: testOptimizer .......................... Passed 0.06 sec + 14/190 Test #21: testOptimizer .......................... Passed 0.01 sec Start 22: testUFFForceField - 15/190 Test #22: testUFFForceField ...................... Passed 0.39 sec + 15/190 Test #2: pyCoordGen ............................. Passed 1.51 sec Start 23: testMMFFForceField - 16/190 Test #2: pyCoordGen ............................. Passed 3.82 sec + 16/190 Test #12: pyFPB .................................. Passed 1.35 sec Start 24: pyForceFieldConstraints - 17/190 Test #3: testDict ............................... Passed 4.57 sec + 17/190 Test #22: testUFFForceField ...................... Passed 0.32 sec Start 25: testDistGeom - 18/190 Test #25: testDistGeom ........................... Passed 0.02 sec + 18/190 Test #25: testDistGeom ........................... Passed 0.04 sec Start 26: pyDistGeom - 19/190 Test #16: testPyGeometry ......................... Passed 2.91 sec + 19/190 Test #20: pyAlignment ............................ Passed 1.20 sec Start 27: graphmolTest1 - 20/190 Test #1: testCoordGen ........................... Passed 5.37 sec + 20/190 Test #16: testPyGeometry ......................... Passed 1.26 sec Start 28: graphmolcpTest - 21/190 Test #28: graphmolcpTest ......................... Passed 0.13 sec + 21/190 Test #28: graphmolcpTest ......................... Passed 0.08 sec Start 29: graphmolqueryTest - 22/190 Test #29: graphmolqueryTest ...................... Passed 0.18 sec + 22/190 Test #26: pyDistGeom ............................. Passed 0.76 sec Start 30: graphmolMolOpsTest - 23/190 Test #20: pyAlignment ............................ Passed 3.50 sec + 23/190 Test #29: graphmolqueryTest ...................... Passed 0.10 sec Start 31: graphmoltestChirality - 24/190 Test #31: graphmoltestChirality .................. Passed 0.67 sec + 24/190 Test #31: graphmoltestChirality .................. Passed 0.18 sec Start 32: graphmoltestPickler - 25/190 Test #9: pyBV ................................... Passed 7.27 sec + 25/190 Test #9: pyBV ................................... Passed 2.82 sec Start 33: graphmoltestPicklerGlobalSetting - 26/190 Test #26: pyDistGeom ............................. Passed 3.02 sec + 26/190 Test #33: graphmoltestPicklerGlobalSetting ....... Passed 0.07 sec Start 34: graphmolIterTest - 27/190 Test #33: graphmoltestPicklerGlobalSetting ....... Passed 0.20 sec + 27/190 Test #34: graphmolIterTest ....................... Passed 0.07 sec Start 35: hanoiTest - 28/190 Test #34: graphmolIterTest ....................... Passed 0.20 sec + 28/190 Test #3: testDict ............................... Passed 3.23 sec Start 36: graphmolMemTest1 - 29/190 Test #36: graphmolMemTest1 ....................... Passed 0.09 sec + 29/190 Test #36: graphmolMemTest1 ....................... Passed 0.02 sec Start 37: resMolSupplierTest - 30/190 Test #24: pyForceFieldConstraints ................ Passed 5.29 sec + 30/190 Test #24: pyForceFieldConstraints ................ Passed 1.92 sec Start 38: molBundleTest - 31/190 Test #38: molBundleTest .......................... Passed 0.21 sec + 31/190 Test #38: molBundleTest .......................... Passed 0.09 sec Start 39: testSGroup - 32/190 Test #39: testSGroup ............................. Passed 0.38 sec + 32/190 Test #32: graphmoltestPickler .................... Passed 0.90 sec Start 40: test-valgrind - 33/190 Test #32: graphmoltestPickler .................... Passed 2.46 sec + 33/190 Test #39: testSGroup ............................. Passed 0.11 sec Start 41: graphmolTestsCatch - 34/190 Test #40: test-valgrind .......................... Passed 0.27 sec + 34/190 Test #40: test-valgrind .......................... Passed 0.07 sec Start 42: graphmolSGroupCatch - 35/190 Test #41: graphmolTestsCatch ..................... Passed 0.40 sec + 35/190 Test #42: graphmolSGroupCatch .................... Passed 0.12 sec Start 43: graphmolAdjustQueryCatch - 36/190 Test #42: graphmolSGroupCatch .................... Passed 0.25 sec + 36/190 Test #41: graphmolTestsCatch ..................... Passed 0.19 sec Start 44: chiralityTestsCatch - 37/190 Test #44: chiralityTestsCatch .................... Passed 0.43 sec + 37/190 Test #44: chiralityTestsCatch .................... Passed 0.14 sec Start 45: testDepictor - 38/190 Test #43: graphmolAdjustQueryCatch ............... Passed 0.55 sec + 38/190 Test #43: graphmolAdjustQueryCatch ............... Passed 0.19 sec Start 46: pyDepictor - 39/190 Test #30: graphmolMolOpsTest ..................... Passed 6.20 sec + 39/190 Test #45: testDepictor ........................... Passed 0.79 sec Start 47: smiTest1 - 40/190 Test #47: smiTest1 ............................... Passed 0.50 sec + 40/190 Test #47: smiTest1 ............................... Passed 0.45 sec Start 48: smiTest2 - 41/190 Test #48: smiTest2 ............................... Passed 0.02 sec + 41/190 Test #48: smiTest2 ............................... Passed 0.04 sec Start 49: cxsmilesTest - 42/190 Test #49: cxsmilesTest ........................... Passed 0.04 sec + 42/190 Test #49: cxsmilesTest ........................... Passed 0.08 sec Start 50: smaTest1 - 43/190 Test #50: smaTest1 ............................... Passed 0.51 sec + 43/190 Test #46: pyDepictor ............................. Passed 1.99 sec Start 51: smiTestCatch - 44/190 Test #51: smiTestCatch ........................... Passed 0.06 sec + 44/190 Test #30: graphmolMolOpsTest ..................... Passed 3.58 sec Start 52: fileParsersTest1 - 45/190 Test #45: testDepictor ........................... Passed 2.73 sec + 45/190 Test #50: smaTest1 ............................... Passed 0.73 sec Start 53: testMolSupplier - 46/190 Test #46: pyDepictor ............................. Passed 4.54 sec + 46/190 Test #51: smiTestCatch ........................... Passed 0.17 sec Start 54: testGeneralFileReader - 47/190 Test #53: testMolSupplier ........................ Passed 2.80 sec + 47/190 Test #54: testGeneralFileReader .................. Passed 0.53 sec Start 55: testMultithreadedMolSupplier - 48/190 Test #54: testGeneralFileReader .................. Passed 1.10 sec + 48/190 Test #53: testMolSupplier ........................ Passed 1.14 sec Start 56: testMolWriter - 49/190 Test #56: testMolWriter .......................... Passed 2.20 sec + 49/190 Test #56: testMolWriter .......................... Passed 1.00 sec Start 57: testTplParser - 50/190 Test #57: testTplParser .......................... Passed 0.26 sec + 50/190 Test #57: testTplParser .......................... Passed 0.22 sec Start 58: testMol2ToMol - 51/190 Test #58: testMol2ToMol .......................... Passed 0.24 sec + 51/190 Test #58: testMol2ToMol .......................... Passed 0.22 sec Start 59: testSequence - 52/190 Test #59: testSequence ........................... Passed 0.33 sec + 52/190 Test #59: testSequence ........................... Passed 0.15 sec Start 60: testExtendedStereoParsing - 53/190 Test #60: testExtendedStereoParsing .............. Passed 0.12 sec + 53/190 Test #60: testExtendedStereoParsing .............. Passed 0.11 sec Start 61: fileParsersCatchTest - 54/190 Test #61: fileParsersCatchTest ................... Passed 0.42 sec + 54/190 Test #61: fileParsersCatchTest ................... Passed 0.22 sec Start 62: testPropertyLists - 55/190 Test #62: testPropertyLists ...................... Passed 0.25 sec + 55/190 Test #62: testPropertyLists ...................... Passed 0.17 sec Start 63: testSubstructMatch - 56/190 Test #63: testSubstructMatch ..................... Passed 2.23 sec + 56/190 Test #63: testSubstructMatch ..................... Passed 1.30 sec Start 64: substructTestCatch - 57/190 Test #64: substructTestCatch ..................... Passed 0.24 sec + 57/190 Test #64: substructTestCatch ..................... Passed 0.11 sec Start 65: testReaction - 58/190 Test #65: testReaction ........................... Passed 4.39 sec + 58/190 Test #35: hanoiTest .............................. Passed 8.42 sec Start 66: testReactionFingerprints - 59/190 Test #35: hanoiTest .............................. Passed 19.64 sec + 59/190 Test #66: testReactionFingerprints ............... Passed 0.23 sec Start 67: testEnumeration - 60/190 Test #66: testReactionFingerprints ............... Passed 0.41 sec + 60/190 Test #65: testReaction ........................... Passed 2.18 sec Start 68: rxnTestCatch - 61/190 Test #68: rxnTestCatch ........................... Passed 0.60 sec + 61/190 Test #68: rxnTestCatch ........................... Passed 0.35 sec Start 69: pyChemReactions - 62/190 Test #69: pyChemReactions ........................ Passed 4.87 sec + 62/190 Test #69: pyChemReactions ........................ Passed 2.67 sec Start 70: pyChemReactionEnumerations - 63/190 Test #37: resMolSupplierTest ..................... Passed 26.61 sec + 63/190 Test #37: resMolSupplierTest ..................... Passed 14.80 sec Start 71: pyChemReactionSanitize - 64/190 Test #71: pyChemReactionSanitize ................. Passed 4.11 sec + 64/190 Test #71: pyChemReactionSanitize ................. Passed 1.07 sec Start 72: testChemTransforms - 65/190 Test #72: testChemTransforms ..................... Passed 0.52 sec + 65/190 Test #72: testChemTransforms ..................... Passed 0.41 sec Start 73: chemTransformsTestCatch - 66/190 Test #73: chemTransformsTestCatch ................ Passed 0.12 sec + 66/190 Test #73: chemTransformsTestCatch ................ Passed 0.11 sec Start 74: tautomerQueryTestCatch - 67/190 Test #74: tautomerQueryTestCatch ................. Passed 1.05 sec + 67/190 Test #74: tautomerQueryTestCatch ................. Passed 0.36 sec Start 75: pyTautomerQuery - 68/190 Test #75: pyTautomerQuery ........................ Passed 2.75 sec + 68/190 Test #75: pyTautomerQuery ........................ Passed 1.69 sec Start 76: testSubgraphs1 - 69/190 Test #55: testMultithreadedMolSupplier ........... Passed 27.04 sec + 69/190 Test #70: pyChemReactionEnumerations ............. Passed 5.85 sec Start 77: testSubgraphs2 - 70/190 Test #77: testSubgraphs2 ......................... Passed 0.09 sec + 70/190 Test #77: testSubgraphs2 ......................... Passed 0.05 sec Start 78: filterCatalogTest - 71/190 Test #70: pyChemReactionEnumerations ............. Passed 10.58 sec + 71/190 Test #78: filterCatalogTest ...................... Passed 0.65 sec Start 79: pyFilterCatalog - 72/190 Test #76: testSubgraphs1 ......................... Passed 0.96 sec + 72/190 Test #76: testSubgraphs1 ......................... Passed 1.15 sec Start 80: testFragCatalog - 73/190 Test #78: filterCatalogTest ...................... Passed 1.08 sec + 73/190 Test #55: testMultithreadedMolSupplier ........... Passed 18.12 sec Start 81: pyFragCatalog - 74/190 Test #81: pyFragCatalog .......................... Passed 2.99 sec + 74/190 Test #80: testFragCatalog ........................ Passed 2.84 sec Start 82: testDescriptors - 75/190 Test #80: testFragCatalog ........................ Passed 5.58 sec + 75/190 Test #81: pyFragCatalog .......................... Passed 2.62 sec Start 83: testAUTOCORR2D - 76/190 Test #79: pyFilterCatalog ........................ Passed 7.05 sec + 76/190 Test #79: pyFilterCatalog ........................ Passed 5.59 sec Start 84: testATF - 77/190 Test #84: testATF ................................ Passed 0.24 sec + 77/190 Test #84: testATF ................................ Passed 0.13 sec Start 85: testBCUT - 78/190 Test #83: testAUTOCORR2D ......................... Passed 3.11 sec + 78/190 Test #83: testAUTOCORR2D ......................... Passed 1.79 sec Start 86: testEEM - 79/190 Test #85: testBCUT ............................... Passed 4.76 sec + 79/190 Test #85: testBCUT ............................... Passed 3.32 sec Start 87: testPBF - 80/190 Test #86: testEEM ................................ Passed 4.56 sec + 80/190 Test #87: testPBF ................................ Passed 0.84 sec Start 88: testRDFcustom - 81/190 Test #87: testPBF ................................ Passed 1.69 sec + 81/190 Test #52: fileParsersTest1 ....................... Passed 27.04 sec Start 89: testRDF - 82/190 Test #89: testRDF ................................ Passed 4.39 sec + 82/190 Test #86: testEEM ................................ Passed 4.47 sec Start 90: testMORSE - 83/190 Test #52: fileParsersTest1 ....................... Passed 50.81 sec + 83/190 Test #89: testRDF ................................ Passed 2.84 sec Start 91: test3D - 84/190 Test #90: testMORSE .............................. Passed 5.12 sec + 84/190 Test #90: testMORSE .............................. Passed 4.41 sec Start 92: testWHIM - 85/190 Test #91: test3D ................................. Passed 3.59 sec + 85/190 Test #91: test3D ................................. Passed 2.24 sec Start 93: testGETAWAY - 86/190 Test #82: testDescriptors ........................ Passed 20.45 sec + 86/190 Test #92: testWHIM ............................... Passed 1.01 sec Start 94: testAUTOCORR3D - 87/190 Test #92: testWHIM ............................... Passed 1.62 sec + 87/190 Test #82: testDescriptors ........................ Passed 14.37 sec Start 95: testCoulombMat - 88/190 Test #95: testCoulombMat ......................... Passed 0.13 sec + 88/190 Test #95: testCoulombMat ......................... Passed 0.06 sec Start 96: pyMolDescriptors - 89/190 Test #94: testAUTOCORR3D ......................... Passed 2.19 sec + 89/190 Test #94: testAUTOCORR3D ......................... Passed 1.18 sec Start 97: pyMolDescriptors3D - 90/190 Test #96: pyMolDescriptors ....................... Passed 3.25 sec + 90/190 Test #96: pyMolDescriptors ....................... Passed 2.23 sec Start 98: testFingerprints - 91/190 Test #97: pyMolDescriptors3D ..................... Passed 3.64 sec + 91/190 Test #97: pyMolDescriptors3D ..................... Passed 2.63 sec Start 99: testMHFPFingerprint - 92/190 Test #99: testMHFPFingerprint .................... Passed 0.42 sec + 92/190 Test #99: testMHFPFingerprint .................... Passed 0.18 sec Start 100: testFingerprintGenerators - 93/190 Test #100: testFingerprintGenerators .............. Passed 5.01 sec + 93/190 Test #93: testGETAWAY ............................ Passed 5.84 sec Start 101: fpTestCatch - 94/190 Test #101: fpTestCatch ............................ Passed 0.20 sec + 94/190 Test #101: fpTestCatch ............................ Passed 0.10 sec Start 102: pyTestGenerator - 95/190 Test #93: testGETAWAY ............................ Passed 12.47 sec + 95/190 Test #102: pyTestGenerator ........................ Passed 2.27 sec Start 103: pyTestMHFP - 96/190 Test #102: pyTestGenerator ........................ Passed 3.50 sec + 96/190 Test #100: testFingerprintGenerators .............. Passed 3.35 sec Start 104: testPartialCharges - 97/190 Test #88: testRDFcustom .......................... Passed 25.64 sec + 97/190 Test #104: testPartialCharges ..................... Passed 0.04 sec Start 105: pyPartialCharges - 98/190 Test #104: testPartialCharges ..................... Passed 0.19 sec + 98/190 Test #88: testRDFcustom .......................... Passed 14.86 sec Start 106: testMolTransforms - 99/190 Test #106: testMolTransforms ...................... Passed 0.21 sec + 99/190 Test #106: testMolTransforms ...................... Passed 0.16 sec Start 107: pyMolTransforms -100/190 Test #103: pyTestMHFP ............................. Passed 3.86 sec +100/190 Test #103: pyTestMHFP ............................. Passed 2.40 sec Start 108: testMMFFForceFieldHelpers -101/190 Test #107: pyMolTransforms ........................ Passed 3.28 sec +101/190 Test #105: pyPartialCharges ....................... Passed 2.68 sec Start 109: testMMFFForceFieldHelpersMultiThread -102/190 Test #105: pyPartialCharges ....................... Passed 3.95 sec +102/190 Test #107: pyMolTransforms ........................ Passed 3.02 sec Start 110: testUFFForceFieldHelpers -103/190 Test #109: testMMFFForceFieldHelpersMultiThread ... Passed 2.21 sec +103/190 Test #109: testMMFFForceFieldHelpersMultiThread ... Passed 1.53 sec Start 111: testCrystalForceField -104/190 Test #111: testCrystalForceField .................. Passed 0.57 sec +104/190 Test #111: testCrystalForceField .................. Passed 0.82 sec Start 112: pyForceFieldHelpers -105/190 Test #112: pyForceFieldHelpers .................... Passed 6.31 sec +105/190 Test #112: pyForceFieldHelpers .................... Passed 3.10 sec Start 113: testDistGeomHelpers -106/190 Test #67: testEnumeration ........................ Passed 74.73 sec +106/190 Test #67: testEnumeration ........................ Passed 45.48 sec Start 114: pyDistGeomHelpers -107/190 Test #98: testFingerprints ....................... Passed 35.21 sec +107/190 Test #98: testFingerprints ....................... Passed 20.19 sec Start 115: testMolAlign -108/190 Test #115: testMolAlign ........................... Passed 1.87 sec +108/190 Test #115: testMolAlign ........................... Passed 1.52 sec Start 116: testO3AAlign -109/190 Test #108: testMMFFForceFieldHelpers .............. Passed 28.97 sec +109/190 Test #108: testMMFFForceFieldHelpers .............. Passed 22.67 sec Start 117: pyMolAlign -110/190 Test #110: testUFFForceFieldHelpers ............... Passed 34.08 sec +110/190 Test #110: testUFFForceFieldHelpers ............... Passed 22.49 sec Start 118: testFeatures -111/190 Test #118: testFeatures ........................... Passed 0.19 sec +111/190 Test #118: testFeatures ........................... Passed 0.13 sec Start 119: pyChemicalFeatures -112/190 Test #119: pyChemicalFeatures ..................... Passed 3.99 sec +112/190 Test #119: pyChemicalFeatures ..................... Passed 1.99 sec Start 120: testShapeHelpers -113/190 Test #120: testShapeHelpers ....................... Passed 0.25 sec +113/190 Test #120: testShapeHelpers ....................... Passed 0.15 sec Start 121: pyShapeHelpers -114/190 Test #121: pyShapeHelpers ......................... Passed 3.37 sec +114/190 Test #121: pyShapeHelpers ......................... Passed 2.49 sec Start 122: testMolCatalog -115/190 Test #122: testMolCatalog ......................... Passed 0.20 sec +115/190 Test #122: testMolCatalog ......................... Passed 0.07 sec Start 123: pyMolCatalog -116/190 Test #123: pyMolCatalog ........................... Passed 3.34 sec +116/190 Test #23: testMMFFForceField ..................... Passed 78.02 sec Start 124: moldraw2DTest1 -117/190 Test #23: testMMFFForceField ..................... Passed 132.32 sec +117/190 Test #123: pyMolCatalog ........................... Passed 2.48 sec Start 125: moldraw2DTestCatch -118/190 Test #125: moldraw2DTestCatch ..................... Passed 0.74 sec +118/190 Test #125: moldraw2DTestCatch ..................... Passed 1.21 sec Start 126: moldraw2DRxnTest1 -119/190 Test #126: moldraw2DRxnTest1 ...................... Passed 1.25 sec +119/190 Test #126: moldraw2DRxnTest1 ...................... Passed 1.23 sec Start 127: pyMolDraw2D -120/190 Test #127: pyMolDraw2D ............................ Passed 6.44 sec +120/190 Test #127: pyMolDraw2D ............................ Passed 5.62 sec Start 128: testFMCS -121/190 Test #128: testFMCS ............................... Passed 28.22 sec +121/190 Test #128: testFMCS ............................... Passed 16.57 sec Start 129: pyFMCS -122/190 Test #124: moldraw2DTest1 ......................... Passed 46.63 sec +122/190 Test #124: moldraw2DTest1 ......................... Passed 30.77 sec Start 130: FMCStest -123/190 Test #130: FMCStest ............................... Passed 0.06 sec +123/190 Test #130: FMCStest ............................... Passed 0.12 sec Start 131: molHashCatchTest -124/190 Test #131: molHashCatchTest ....................... Passed 0.14 sec +124/190 Test #131: molHashCatchTest ....................... Passed 0.12 sec Start 132: pyMolHash -125/190 Test #132: pyMolHash .............................. Passed 4.18 sec +125/190 Test #132: pyMolHash .............................. Passed 2.37 sec Start 133: testMMPA -126/190 Test #133: testMMPA ............................... Passed 1.18 sec +126/190 Test #133: testMMPA ............................... Passed 0.61 sec Start 134: pyMMPA -127/190 Test #134: pyMMPA ................................. Passed 13.59 sec +127/190 Test #134: pyMMPA ................................. Passed 6.59 sec Start 135: testCIPLabeler -128/190 Test #135: testCIPLabeler ......................... Passed 0.24 sec +128/190 Test #135: testCIPLabeler ......................... Passed 0.25 sec Start 136: pyCIPLabelsWrapTest -129/190 Test #136: pyCIPLabelsWrapTest .................... Passed 5.01 sec +129/190 Test #136: pyCIPLabelsWrapTest .................... Passed 1.87 sec Start 137: pyCIPLabelsValidation -130/190 Test #129: pyFMCS ................................. Passed 38.84 sec +130/190 Test #129: pyFMCS ................................. Passed 20.44 sec Start 138: deprotectTest -131/190 Test #138: deprotectTest .......................... Passed 0.73 sec +131/190 Test #138: deprotectTest .......................... Passed 0.15 sec Start 139: pyDeprotect -132/190 Test #139: pyDeprotect ............................ Passed 3.37 sec +132/190 Test #139: pyDeprotect ............................ Passed 1.38 sec Start 140: testReducedGraphs -133/190 Test #140: testReducedGraphs ...................... Passed 0.19 sec +133/190 Test #140: testReducedGraphs ...................... Passed 0.15 sec Start 141: pyReducedGraphs -134/190 Test #117: pyMolAlign ............................. Passed 104.63 sec +134/190 Test #141: pyReducedGraphs ........................ Passed 1.84 sec Start 142: trajectoryTest -135/190 Test #142: trajectoryTest ......................... Passed 2.40 sec +135/190 Test #117: pyMolAlign ............................. Passed 58.20 sec Start 143: substructLibraryTest -136/190 Test #141: pyReducedGraphs ........................ Passed 4.44 sec +136/190 Test #142: trajectoryTest ......................... Passed 1.35 sec Start 144: pySubstructLibrary -137/190 Test #143: substructLibraryTest ................... Passed 8.75 sec +137/190 Test #143: substructLibraryTest ................... Passed 5.31 sec Start 145: testRGroupDecomp -138/190 Test #145: testRGroupDecomp .......................Child aborted***Exception: 16.87 sec -[16:19:30] ******************************************************** -[16:19:30] Testing R-Group Decomposition -[16:19:30] ******************************************************** -[16:19:30] test rgroup decomp symmetry matching -[16:19:31] ******************************************************** -[16:19:31] test rgroup decomp rgroup only matching -[16:19:31] ******************************************************** -[16:19:31] test rgroup decomp ring matching -[16:19:31] ******************************************************** -[16:19:31] test rgroup decomp full ring dummy core -[16:19:31] ******************************************************** -[16:19:31] test multi core -[16:19:32] ******************************************************** -[16:19:32] test Github #1550: Kekulization error from R-group decomposition -[16:19:32] ******************************************************** -[16:19:32] test remove sidechain Hs -[16:19:32] ******************************************************** -[16:19:32] test matching only rgroups but allows Hs -[16:19:32] ******************************************************** -[16:19:32] test rgroup decomp full ring dummy core -[16:19:32] ******************************************************** -[16:19:32] test grouping substituents in chunks as large as possible -[16:19:32] ******************************************************** -[16:19:32] test github #2332: RGroupDecomposition: addHs() call should set coords -[16:19:33] ******************************************************** -[16:19:33] test a problem with row-column alignment -[16:19:34] ******************************************************** -[16:19:34] Testing R-Group symmetry issues -[16:19:34] ******************************************************** -[16:19:34] Testing R-Group symmetry issues -iterative -bulk -bulk, no symmetry -[16:19:47] - -**** -Test Assert -Expression Failed: -Violation occurred on line 1190 in file /build/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/testRGroupDecomp.cpp -Failed Expression: ok -**** - -terminate called after throwing an instance of 'Invar::Invariant' - what(): Expression Failed: - +138/190 Test #145: testRGroupDecomp ....................... Passed 6.52 sec Start 146: pyRGroupDecomposition -139/190 Test #146: pyRGroupDecomposition .................. Passed 14.72 sec +139/190 Test #137: pyCIPLabelsValidation .................. Passed 25.01 sec Start 147: molInterchangeTest1 -140/190 Test #147: molInterchangeTest1 .................... Passed 0.21 sec +140/190 Test #147: molInterchangeTest1 .................... Passed 0.12 sec Start 148: pyMolInterchange -141/190 Test #137: pyCIPLabelsValidation .................. Passed 57.71 sec +141/190 Test #148: pyMolInterchange ....................... Passed 1.55 sec Start 149: testSLNParse -142/190 Test #149: testSLNParse ........................... Passed 0.11 sec +142/190 Test #149: testSLNParse ........................... Passed 0.14 sec Start 150: pySLNParse -143/190 Test #148: pyMolInterchange ....................... Passed 3.61 sec +143/190 Test #146: pyRGroupDecomposition .................. Passed 10.44 sec Start 151: pyGraphMolWrap -144/190 Test #144: pySubstructLibrary ..................... Passed 43.84 sec +144/190 Test #150: pySLNParse ............................. Passed 3.21 sec Start 152: pyTestConformerWrap -145/190 Test #150: pySLNParse ............................. Passed 3.63 sec +145/190 Test #152: pyTestConformerWrap .................... Passed 1.64 sec Start 153: pyTestTrajectory -146/190 Test #152: pyTestConformerWrap .................... Passed 2.84 sec +146/190 Test #153: pyTestTrajectory ....................... Passed 3.72 sec Start 154: pyTestSGroups -147/190 Test #153: pyTestTrajectory ....................... Passed 4.99 sec +147/190 Test #114: pyDistGeomHelpers ...................... Passed 100.99 sec Start 155: pyTestThreads -148/190 Test #154: pyTestSGroups .......................... Passed 5.15 sec +148/190 Test #154: pyTestSGroups .......................... Passed 1.00 sec Start 156: pyTestMultithreadedMolSupplier -149/190 Test #156: pyTestMultithreadedMolSupplier ......... Passed 2.18 sec +149/190 Test #156: pyTestMultithreadedMolSupplier ......... Passed 2.10 sec Start 157: pyTestPropertyLists -150/190 Test #155: pyTestThreads .......................... Passed 5.19 sec +150/190 Test #157: pyTestPropertyLists .................... Passed 2.21 sec Start 158: molStandardizeTest -151/190 Test #157: pyTestPropertyLists .................... Passed 3.35 sec +151/190 Test #158: molStandardizeTest ..................... Passed 4.47 sec Start 159: molNormalizeTest -152/190 Test #159: molNormalizeTest ....................... Passed 1.45 sec +152/190 Test #159: molNormalizeTest ....................... Passed 0.55 sec Start 160: molValidateTest -153/190 Test #160: molValidateTest ........................ Passed 0.37 sec +153/190 Test #155: pyTestThreads .......................... Passed 9.98 sec Start 161: molChargeTest -154/190 Test #161: molChargeTest .......................... Passed 0.47 sec +154/190 Test #160: molValidateTest ........................ Passed 0.28 sec Start 162: molTautomerTest -155/190 Test #158: molStandardizeTest ..................... Passed 9.41 sec +155/190 Test #161: molChargeTest .......................... Passed 0.68 sec Start 163: molStandardizeSmallTest -156/190 Test #163: molStandardizeSmallTest ................ Passed 0.58 sec +156/190 Test #163: molStandardizeSmallTest ................ Passed 0.10 sec Start 164: molFragmentTest -157/190 Test #164: molFragmentTest ........................ Passed 0.12 sec +157/190 Test #164: molFragmentTest ........................ Passed 0.16 sec Start 165: molStandardizeCatchTest -158/190 Test #165: molStandardizeCatchTest ................ Passed 0.21 sec +158/190 Test #165: molStandardizeCatchTest ................ Passed 0.16 sec Start 166: pyMolStandardize -159/190 Test #114: pyDistGeomHelpers ...................... Passed 195.28 sec +159/190 Test #144: pySubstructLibrary ..................... Passed 40.51 sec Start 167: testScaffoldNetwork -160/190 Test #162: molTautomerTest ........................ Passed 20.53 sec +160/190 Test #167: testScaffoldNetwork .................... Passed 6.85 sec Start 168: pyScaffoldNetwork -161/190 Test #168: pyScaffoldNetwork ...................... Passed 3.72 sec +161/190 Test #168: pyScaffoldNetwork ...................... Passed 3.39 sec Start 169: pyScaffoldNetworkPickling -162/190 Test #166: pyMolStandardize ....................... Passed 19.68 sec +162/190 Test #169: pyScaffoldNetworkPickling .............. Passed 1.45 sec Start 170: testMolEnumerator -163/190 Test #170: testMolEnumerator ...................... Passed 0.25 sec +163/190 Test #170: testMolEnumerator ...................... Passed 0.29 sec Start 171: pyMolEnumerator -164/190 Test #167: testScaffoldNetwork .................... Passed 9.38 sec +164/190 Test #162: molTautomerTest ........................ Passed 16.28 sec Start 172: testAbbreviations -165/190 Test #171: pyMolEnumerator ........................ Passed 1.74 sec +165/190 Test #172: testAbbreviations ...................... Passed 0.11 sec Start 173: pyAbbreviations -166/190 Test #172: testAbbreviations ...................... Passed 0.28 sec +166/190 Test #171: pyMolEnumerator ........................ Passed 2.23 sec Start 174: testQuery 167/190 Test #174: testQuery .............................. Passed 0.01 sec Start 175: testMatCalc 168/190 Test #175: testMatCalc ............................ Passed 0.01 sec Start 176: pyMatCalc -169/190 Test #169: pyScaffoldNetworkPickling .............. Passed 3.01 sec +169/190 Test #173: pyAbbreviations ........................ Passed 1.24 sec Start 177: testSimDivPickers 170/190 Test #177: testSimDivPickers ...................... Passed 0.06 sec Start 178: pickersTestsCatch -171/190 Test #178: pickersTestsCatch ...................... Passed 0.50 sec +171/190 Test #178: pickersTestsCatch ...................... Passed 0.25 sec Start 179: pySimDivPickers -172/190 Test #173: pyAbbreviations ........................ Passed 2.32 sec +172/190 Test #166: pyMolStandardize ....................... Passed 18.35 sec Start 180: pyRanker -173/190 Test #176: pyMatCalc .............................. Passed 4.32 sec +173/190 Test #176: pyMatCalc .............................. Passed 3.47 sec Start 181: testChemicalFeatures -174/190 Test #181: testChemicalFeatures ................... Passed 0.05 sec +174/190 Test #181: testChemicalFeatures ................... Passed 0.03 sec Start 182: pyFeatures -175/190 Test #180: pyRanker ............................... Passed 2.74 sec +175/190 Test #180: pyRanker ............................... Passed 1.11 sec Start 183: pythonTestDbCLI -176/190 Test #182: pyFeatures ............................. Passed 1.92 sec +176/190 Test #182: pyFeatures ............................. Passed 1.79 sec Start 184: pythonTestDirML -177/190 Test #179: pySimDivPickers ........................ Passed 11.01 sec +177/190 Test #179: pySimDivPickers ........................ Passed 8.32 sec Start 185: pythonTestDirDataStructs -178/190 Test #185: pythonTestDirDataStructs ............... Passed 10.68 sec +178/190 Test #27: graphmolTest1 .......................... Passed 195.40 sec Start 186: pythonTestDirDbase -179/190 Test #186: pythonTestDirDbase ..................... Passed 6.25 sec +179/190 Test #186: pythonTestDirDbase ..................... Passed 6.65 sec Start 187: pythonTestDirSimDivFilters -180/190 Test #187: pythonTestDirSimDivFilters ............. Passed 4.60 sec +180/190 Test #151: pyGraphMolWrap ......................... Passed 53.28 sec Start 188: pythonTestDirVLib -181/190 Test #151: pyGraphMolWrap ......................... Passed 77.85 sec +181/190 Test #187: pythonTestDirSimDivFilters ............. Passed 3.48 sec Start 189: pythonTestDirChem -182/190 Test #188: pythonTestDirVLib ...................... Passed 6.98 sec +182/190 Test #185: pythonTestDirDataStructs ............... Passed 14.00 sec Start 190: pythonTestSping -183/190 Test #190: pythonTestSping ........................ Passed 9.56 sec -184/190 Test #116: testO3AAlign ........................... Passed 253.91 sec -185/190 Test #27: graphmolTest1 .......................... Passed 358.80 sec -186/190 Test #113: testDistGeomHelpers .................... Passed 307.59 sec -187/190 Test #184: pythonTestDirML ........................ Passed 94.97 sec -188/190 Test #183: pythonTestDbCLI ........................ Passed 106.00 sec -189/190 Test #5: testConcurrentQueue .................... Passed 440.19 sec -190/190 Test #189: pythonTestDirChem ...................... Passed 263.71 sec - -99% tests passed, 1 tests failed out of 190 - -Total Test time (real) = 605.55 sec - -The following tests FAILED: - 145 - testRGroupDecomp (Child aborted) -Errors while running CTest -make[2]: *** [Makefile:129: test] Error 8 +183/190 Test #188: pythonTestDirVLib ...................... Passed 6.64 sec +184/190 Test #190: pythonTestSping ........................ Passed 5.87 sec +185/190 Test #116: testO3AAlign ........................... Passed 167.64 sec +186/190 Test #113: testDistGeomHelpers .................... Passed 219.41 sec +187/190 Test #184: pythonTestDirML ........................ Passed 109.38 sec +188/190 Test #183: pythonTestDbCLI ........................ Passed 117.80 sec +189/190 Test #189: pythonTestDirChem ...................... Passed 332.15 sec +190/190 Test #5: testConcurrentQueue .................... Passed 708.43 sec + +100% tests passed, 0 tests failed out of 190 + +Total Test time (real) = 708.50 sec make[2]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -dh_auto_test: error: cd obj-aarch64-linux-gnu && make -j8 test ARGS\+=-j8 returned exit code 2 -make[1]: [debian/rules:126: override_dh_auto_test] Error 25 (ignored) make[1]: Leaving directory '/build/rdkit-202009.4' fakeroot debian/rules binary dh binary --with python3 --buildsystem=cmake --parallel @@ -17415,10 +17430,10 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/catch /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/catch /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/catch/CMakeFiles/catch.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/coordgen_support.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/INCHI-API /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/INCHI-API /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/INCHI-API/CMakeFiles/inchi_support.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/coordgen_support.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/RingFamilies /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/RingFamilies /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f External/catch/CMakeFiles/catch.dir/build.make External/catch/CMakeFiles/catch.dir/build @@ -17429,448 +17444,447 @@ make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/INCHI-API && /usr/bin/cmake -E copy /build/rdkit-202009.4/External/INCHI-API/python/noinchi.py /build/rdkit-202009.4/rdkit/Chem/inchi.py -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build.make External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build'. +[ 0%] Built target catch make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f External/CoordGen/CMakeFiles/coordgen_support.dir/build.make External/CoordGen/CMakeFiles/coordgen_support.dir/build -[ 0%] Built target catch +make -f External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build.make External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build +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[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'External/CoordGen/CMakeFiles/coordgen_support.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -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 +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'External/RingFamilies/CMakeFiles/ringdecomposerlib_support.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/RDGeneral /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDGeneral/CMakeFiles/RDGeneral.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/RDStreams /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDStreams /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDStreams/CMakeFiles/RDStreams.dir/DependInfo.cmake --color= +make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/depend +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ML/Cluster/Murtagh /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh 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+make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/depend make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/depend make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/depend make -f Code/RDGeneral/CMakeFiles/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 -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make 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'Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build'. +make[4]: Nothing to be done for 'Code/RDBoost/CMakeFiles/RDBoost.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build +make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/RDBoost/CMakeFiles/RDBoost.dir/build'. +make[4]: Nothing to be done for 'Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build.make Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build make -f Code/RDGeneral/CMakeFiles/testRDValue.dir/build.make Code/RDGeneral/CMakeFiles/testRDValue.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/testConcurrentQueue.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/testRDValue.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build -make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/Catalogs/CMakeFiles/Catalogs.dir/build'. +make[4]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/testDict.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/DataStructs.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 1%] Built target EigenSolvers -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/RDGeneral/CMakeFiles/testDict.dir/build'. +[ 1%] Built target testConcurrentQueue +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.dir/build +make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.dir/build [ 1%] Built target RDBoost 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 +[ 1%] Built target EigenSolvers +make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Query /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Query /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Query/CMakeFiles/testQuery.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataManip/MetricMatrixCalc /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/Numerics/CMakeFiles/testMatrices.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataManip/MetricMatrixCalc /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake --color= -[ 1%] Built target Catalogs -make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/depend +make[4]: Nothing to be done for 'Code/Catalogs/CMakeFiles/Catalogs.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 2%] Built target testRDValue -[ 4%] Built target DataStructs make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/depend -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 4%] Built target testConcurrentQueue -make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/build -make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/depend -[ 4%] Built target testDict -make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend -[ 4%] Built target testMatrices make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/SimDivPickers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DependInfo.cmake --color= -make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend -make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/depend +[ 3%] Built target testDict +[ 4%] Built target DataStructs make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ML/Cluster/Murtagh /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake --color= +make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/depend +make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/depend +[ 4%] Built target testMatrices +make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/depend +[ 4%] Built target Catalogs make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/RDGeometryLib.dir/DependInfo.cmake --color= +make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/RDBoost/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake --color= cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testMultiFPB.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/Query/CMakeFiles/testQuery.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testFPB.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build +make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/Query/CMakeFiles/testQuery.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.dir/build -[ 4%] Built target testQuery -make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/depend +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/build [ 5%] Built target testMatCalc +make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-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 -[ 6%] Built target SimDivPickers -make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataStructs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataManip/MetricMatrixCalc/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap /build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testFPB.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/DataStructs/CMakeFiles/testFPB.dir/build.make Code/DataStructs/CMakeFiles/testFPB.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/RDGeometryLib.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build'. +make[4]: Nothing to be done for 'Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/DataStructs/CMakeFiles/testMultiFPB.dir/build.make Code/DataStructs/CMakeFiles/testMultiFPB.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testFPB.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testMultiFPB.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 5%] Built target testQuery +[ 6%] Built target SimDivPickers +make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend +[ 6%] Built target rdBase [ 7%] Built target RDGeometryLib +[ 7%] Built target Clustering +make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/depend make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testMultiFPB.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/build -[ 7%] Built target rdBase +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataManip/MetricMatrixCalc/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake --color= make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/depend +make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DataStructs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake --color= +[ 7%] Built target testFPB +make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/SimDivPickers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/SimDivPickers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/SimDivPickers 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Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build +make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.dir/build +make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testDataStructs.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ML/InfoTheory /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ML/InfoTheory /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/DataStructs/CMakeFiles/testDataStructs.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build -[ 8%] Built target testDataStructs -make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/depend -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build.make Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/SimDivPickers/CMakeFiles/testSimDivPickers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/SimDivPickers/CMakeFiles/pickersTestsCatch.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build -[ 8%] Built target testSimDivPickers -[ 8%] Built target InfoTheory +make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build +[ 8%] Built target testDataStructs 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 -[ 8%] Built target pickersTestsCatch -make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build +[ 8%] Built target testSimDivPickers +make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/depend +[ 8%] Built target pickersTestsCatch make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 8%] Built target Clustering -make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build +make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/geometryTestsCatch.dir/DependInfo.cmake --color= +[ 8%] Built target InfoTheory +[ 8%] Built target rdMetricMatrixCalc [ 8%] Built target ChemicalFeatures +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 -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend +[ 9%] Built target rdSimDivPickers +[ 11%] Built target cDataStructs +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testGrid.dir/DependInfo.cmake --color= +make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/CMakeFiles/testTransforms.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake --color= +make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ML/InfoTheory/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 8%] Built target rdMetricMatrixCalc make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/Geometry/CMakeFiles/testGrid.dir/build.make Code/Geometry/CMakeFiles/testGrid.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build'. +make -f Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build.make Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/depend -[ 8%] Built target Alignment -make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/depend +make -f Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/GraphMol.dir/build.make Code/GraphMol/CMakeFiles/GraphMol.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Geometry/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/DependInfo.cmake --color= -[ 10%] Built target cDataStructs -[ 11%] Built target rdSimDivPickers -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/CMakeFiles/testConrec.dir/DependInfo.cmake --color= -make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend -make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/depend -[ 11%] Built target geometryTestsCatch -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Alignment/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake --color= +make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/geometryTestsCatch.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/testGrid.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Geometry/CMakeFiles/testTransforms.dir/build.make Code/Geometry/CMakeFiles/testTransforms.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/GraphMol.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/depend +make[4]: Nothing to be done for 'Code/Numerics/Alignment/CMakeFiles/Alignment.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Numerics/CMakeFiles/testConrec.dir/build.make Code/Numerics/CMakeFiles/testConrec.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/Geometry/CMakeFiles/testTransforms.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ML/InfoTheory/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/GraphMol.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 11%] Built target testGrid make -f Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build.make Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build -make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/depend +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 make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/Numerics/CMakeFiles/testConrec.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 15%] Built target GraphMol -make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build -make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend -[ 15%] Built target testTransforms -make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ML/Data /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake --color= +[ 11%] Built target testGrid +[ 11%] Built target geometryTestsCatch make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build -[ 16%] Built target testConrec +[ 11%] Built target Alignment +make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/depend +make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ChemicalFeatures/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake --color= +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ML/Data /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake --color= +[ 15%] Built target GraphMol make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/depend -[ 17%] Built target rdGeometry make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/depend +[ 16%] Built target rdGeometry +make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/DependInfo.cmake --color= +[ 16%] Built target testTransforms make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Substruct /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/DependInfo.cmake --color= +make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 16%] Built target rdInfoTheory +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/DependInfo.cmake --color= +make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/depend +[ 17%] Built target testConrec +make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Alignment/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Trajectory /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build -[ 17%] Built target testAlignment -make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/depend -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build.make Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build'. +make[4]: Nothing to be done for 'Code/Numerics/Alignment/CMakeFiles/testAlignment.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build -[ 17%] Built target testChemicalFeatures +make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/ML/Data/CMakeFiles/cQuantize.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 17%] Built target rdAlignment -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Trajectory /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/DependInfo.cmake --color= +make -f Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build.make Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build +[ 17%] Built target testAlignment +[ 17%] Built target testChemicalFeatures make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/depend -[ 17%] Built target rdChemicalFeatures make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/depend -[ 17%] Built target cQuantize -make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Subgraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/PartialCharges /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/DependInfo.cmake --color= +[ 17%] Built target cQuantize +make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/depend +[ 17%] Built target SubstructMatch make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/DependInfo.cmake --color= -[ 17%] Built target rdInfoTheory make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/depend +[ 18%] Built target SmilesParse +make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/CIPLabeler /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/build +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolInterchange /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/SubstructMatch.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/CIPLabeler /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 17%] Built target SubstructMatch -make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build -make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Trajectory/CMakeFiles/Trajectory.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolInterchange 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Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build -[ 17%] Built target Trajectory +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build +make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build +[ 18%] Built target rdAlignment +make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/depend -[ 18%] Built target SmilesParse -make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SLNParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 18%] Built target MolTransforms [ 19%] Built target PartialCharges make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/depend +make -f Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' @@ -17878,788 +17892,778 @@ cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Abbreviations /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build [ 19%] Built target Subgraphs -make -f Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/depend +[ 19%] Built target MolInterchange +make -f Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build.make Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ChemicalFeatures/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/DependInfo.cmake --color= [ 20%] Built target MolCatalog +make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Abbreviations /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build +make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build +make -f Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CIPLabeler/CMakeFiles/CIPLabeler.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolInterchange/CMakeFiles/MolInterchange.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdqueries.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 20%] Built target SLNParse +[ 24%] Built target rdqueries +[ 24%] Built target CIPLabeler +make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/CMakeFiles/SLNParse.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/Abbreviations.dir/build -make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build -[ 23%] Built target CIPLabeler -make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/depend -[ 23%] Built target MolTransforms make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/depend -[ 23%] Built target MolInterchange make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/depend -[ 23%] Built target rdtrajectory -make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/depend -[ 24%] Built target rdqueries -[ 24%] Built target SLNParse -make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdtrajectory.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Optimizer /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/DependInfo.cmake --color= -make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu 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Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build +[ 24%] Built target Abbreviations +make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/test-valgrind.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol 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Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build'. +make[4]: Nothing to be done for 'Code/ChemicalFeatures/Wrap/CMakeFiles/rdChemicalFeatures.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build -[ 24%] Built target ChemTransforms -[ 24%] Built target Abbreviations -make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/depend -make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/build -make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake --color= +make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build +[ 24%] Built target rdtrajectory +make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/depend +[ 24%] Built target rdChemicalFeatures make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolIterTest.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolcpTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/test-valgrind.dir/build.make Code/GraphMol/CMakeFiles/test-valgrind.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolqueryTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/test-valgrind.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 24%] Built target Optimizer +[ 24%] Built target ChemTransforms +[ 24%] Built target graphmolcpTest +make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/depend make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build +make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/depend make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build -[ 24%] Built target graphmolIterTest +make -f Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build +make -f Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolMemTest1.dir/build make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/depend +[ 24%] Built target MolAlign +make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/depend +[ 24%] Built target test-valgrind +[ 24%] Built target graphmolqueryTest +make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/DependInfo.cmake --color= +make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/DependInfo.cmake --color= -[ 25%] Built target smiTest2 -make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FilterCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/DependInfo.cmake --color= -[ 25%] Built target smaTest1 -[ 25%] Built target test-valgrind -make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs2.dir/depend -[ 25%] Built target graphmolqueryTest -[ 25%] Built target Optimizer -[ 25%] Built target graphmolcpTest -make -f Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/testSubgraphs1.dir/depend -make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/depend -make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/depend -[ 25%] Built target graphmolMemTest1 -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 make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Subgraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Subgraphs 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--color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FragCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/PartialCharges /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/PartialCharges/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolIterTest.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolTransforms/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu 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'/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build'. +make -f Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smaTest1.dir/build +make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest2.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 27%] Built target Fingerprints -make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/depend +make -f Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/FilterCatalog.dir/build +[ 24%] Built target graphmolIterTest +make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/depend +[ 24%] Built target graphmolMemTest1 +make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/depend +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/DependInfo.cmake --color= -[ 28%] Built target FilterCatalog -make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/depend +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FragCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ShapeHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers 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make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build +[ 26%] Built target smiTest2 +[ 26%] Built target FilterCatalog +make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/Fingerprints/CMakeFiles/Fingerprints.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build -[ 28%] Built target rdPartialCharges +[ 26%] Built target smaTest1 +[ 27%] Built target testSubgraphs2 +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/PartialCharges/CMakeFiles/testPartialCharges.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog.dir/build +make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 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/build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolTransforms/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/DependInfo.cmake --color= make -f Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build.make Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/depend -[ 28%] Built target testSubgraphs1 +[ 29%] Built target Fingerprints make -f Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/depend +[ 29%] Built target testPartialCharges make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/DependInfo.cmake --color= -[ 28%] Built target testPartialCharges +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ShapeHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/DependInfo.cmake --color= make -f Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/depend -[ 29%] Built target testSubgraphs2 -make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/depend -[ 30%] Built target FragCatalog -make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix 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/build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/CIPLabeler/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake --color= +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/CIPLabeler /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake --color= +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build.make Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build [ 30%] 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/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolInterchange/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/PartialCharges/Wrap/CMakeFiles/rdPartialCharges.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build.make Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build.make Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CIPLabeler/Wrap/CMakeFiles/rdCIPLabeler.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build +[ 30%] Built target rdPartialCharges make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/ReducedGraphs/CMakeFiles/ReducedGraphs.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/MolCatalog/Wrap/CMakeFiles/rdMolCatalog.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/depend make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 30%] Built target ReducedGraphs -make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CIPLabeler/CMakeFiles/testCIPLabeler.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolInterchange/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/DependInfo.cmake --color= [ 30%] Built target rdCIPLabeler +[ 30%] Built target ReducedGraphs +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/CMakeFiles/SubstructLibrary.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/depend make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/depend -[ 30%] Built target rdMolInterchange +[ 31%] Built target rdMolTransforms make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/depend -[ 31%] Built target SubstructLibrary make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SLNParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/DependInfo.cmake --color= -make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend -[ 31%] Built target rdMolCatalog -make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SLNParse/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build.make Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/DependInfo.cmake --color= [ 31%] Built target ShapeHelpers -[ 34%] Built target testCIPLabeler +make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/depend +[ 35%] Built target testCIPLabeler +make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend +[ 35%] Built target rdMolCatalog +[ 34%] Built target SubstructLibrary +make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/depend make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/depend -make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Abbreviations/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/DependInfo.cmake --color= +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Depictor /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Optimizer /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/DependInfo.cmake --color= +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/CoordGen/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/DependInfo.cmake --color= +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/Numerics/Optimizer /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ForceField /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/MolInterchange/Wrap/CMakeFiles/rdMolInterchange.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build.make Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build make -f Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolTransforms/Wrap/CMakeFiles/rdMolTransforms.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/Wrap/CMakeFiles/rdSLNParse.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build +make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build +[ 35%] Built target rdMolInterchange +make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/Depictor/CMakeFiles/Depictor.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 35%] Built target rdMolTransforms -make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SLNParse/CMakeFiles/testSLNParse.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 36%] Built target rdSLNParse +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ForceField /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/CMakeFiles/ForceField.dir/DependInfo.cmake --color= +make -f Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build.make Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/depend +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build.make Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build +[ 36%] Built target Depictor +[ 36%] Built target testSLNParse make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/depend +make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FilterCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake --color= +[ 38%] Built target rdchem +make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/Numerics/Optimizer/CMakeFiles/testOptimizer.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 36%] Built target testSLNParse -make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build.make Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Abbreviations/Wrap/CMakeFiles/rdAbbreviations.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build -[ 37%] Built target testOptimizer -make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/depend +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/DependInfo.cmake --color= -[ 38%] Built target rdAbbreviations +[ 39%] Built target testOptimizer make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdMHFPFingerprint.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdchem.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build.make Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build -[ 38%] Built target rdMHFPFingerprint -make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/Wrap/CMakeFiles/rdFingerprintGenerator.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/FilterCatalog/Wrap/CMakeFiles/rdfiltercatalog.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/ForceField/CMakeFiles/ForceField.dir/build.make Code/ForceField/CMakeFiles/ForceField.dir/build +make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/ForceField/CMakeFiles/ForceField.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ShapeHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build +[ 40%] Built target rdAbbreviations +make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/ForceField/CMakeFiles/ForceField.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 40%] Built target rdMHFPFingerprint +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/DependInfo.cmake --color= +make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build'. +make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 41%] Built target rdFingerprintGenerator +[ 42%] Built target rdfiltercatalog +make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build -make -f Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build make -f Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build -[ 39%] Built target rdfiltercatalog -make -f Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build.make Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/depend -[ 42%] Built target ForceField -make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/depend -[ 44%] Built target rdchem +[ 45%] Built target ForceField +make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/depend +[ 46%] Built target rdMolChemicalFeatures make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ReducedGraphs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SubstructLibrary/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/DependInfo.cmake --color= -[ 45%] Built target rdFingerprintGenerator -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake --color= +[ 46%] Built target rdCoordGen make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/CMakeFiles/testReducedGraphs.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/depend +[ 46%] Built target rdShapeHelpers make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/Wrap/CMakeFiles/rdMolChemicalFeatures.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/MolAlign.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Depictor/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/Wrap/CMakeFiles/rdShapeHelpers.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 47%] Built target testReducedGraphs make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build.make Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build -[ 45%] Built target rdShapeHelpers +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build +[ 47%] Built target rdReducedGraphs make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/Wrap/CMakeFiles/rdSubstructLibrary.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 46%] Built target testReducedGraphs -[ 47%] Built target MolAlign -[ 47%] Built target rdMolChemicalFeatures -make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/depend -make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/depend -[ 47%] Built target rdSubstructLibrary -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Depictor /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/CoordGen/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build +[ 47%] Built target rdSubstructLibrary +[ 49%] Built target ForceFieldHelpers +[ 49%] Built target rdDepictor make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ReducedGraphs/Wrap/CMakeFiles/rdReducedGraphs.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 48%] 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 Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/depend make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/depend -[ 48%] Built target rdReducedGraphs -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ForceField/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DistGeom /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build.make External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Depictor/CMakeFiles/Depictor.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 48%] Built target Depictor -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build -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 -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Depictor/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/DependInfo.cmake --color= -[ 48%] Built target rdCoordGen -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 48%] Built target rdForceField -make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/DistGeom/CMakeFiles/DistGeometry.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build -[ 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 -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/depend -make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DistGeom /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DistGeom/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build.make Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/FileParsers.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Depictor/Wrap/CMakeFiles/rdDepictor.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 49%] Built target O3AAlign -[ 50%] Built target rdDepictor -[ 53%] Built target FileParsers +[ 52%] 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/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/depend -make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/depend -make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ForceField/UFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/UFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen /build/rdkit-202009.4/obj-aarch64-linux-gnu/External/CoordGen/CMakeFiles/testCoordGen.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/depend +make -f Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/build +make -f Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build.make Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/DistGeom/CMakeFiles/testDistGeom.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/Wrap/CMakeFiles/rdForceFieldHelpers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build -[ 54%] Built target testDistGeom -make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/testSGroup.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/ForceField/Wrap/CMakeFiles/rdForceField.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build +make -f Code/DistGeom/CMakeFiles/DistGeometry.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build make -f Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build +[ 52%] Built target rdForceFieldHelpers +make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build'. +make[4]: Nothing to be done for 'Code/DistGeom/CMakeFiles/DistGeometry.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolSGroupCatch.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/build +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/chiralityTestsCatch.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/build -[ 54%] Built target DistGeomHelpers +[ 52%] Built target rdForceField +[ 52%] Built target graphmolSGroupCatch +[ 53%] Built target DistGeometry +make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/depend make -f Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/depend -[ 54%] Built target chiralityTestsCatch -[ 54%] Built target graphmolSGroupCatch make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 53%] Built target chiralityTestsCatch make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/testSGroup.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/DependInfo.cmake --color= -[ 55%] Built target graphmolTestsCatch -make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build +make -f Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolTestsCatch.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/testSGroup.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f External/CoordGen/CMakeFiles/testCoordGen.dir/build.make External/CoordGen/CMakeFiles/testCoordGen.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build.make Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build.make Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build -[ 55%] Built target testSGroup -[ 56%] Built target DistGeom -make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend -make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/DependInfo.cmake --color= +[ 54%] Built target graphmolTestsCatch +make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/depend make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolTest1.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/testSGroup.dir/build.make Code/GraphMol/CMakeFiles/testSGroup.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/O3AAlign.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolAdjustQueryCatch.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestChirality.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolTest1.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/testSGroup.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestPicklerGlobalSetting.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 57%] Built target graphmolAdjustQueryCatch -make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'External/CoordGen/CMakeFiles/testCoordGen.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 57%] Built target graphmoltestChirality -make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/DependInfo.cmake --color= -[ 57%] Built target graphmolTest1 -make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/depend +make[4]: Nothing to be done for 'Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/graphmolTest1.dir/build.make Code/GraphMol/CMakeFiles/graphmolTest1.dir/build +[ 54%] Built target O3AAlign +make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/depend +[ 55%] Built target graphmolAdjustQueryCatch make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/graphmolTest1.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/hanoiTest.dir/DependInfo.cmake --color= -[ 57%] Built target testCoordGen +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/DependInfo.cmake --color= +[ 55%] Built target graphmoltestPicklerGlobalSetting +make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/depend +[ 55%] Built target testCoordGen +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/DependInfo.cmake --color= +make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/depend +[ 55%] Built target graphmolTest1 +[ 55%] Built target testSGroup +make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/depend make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/molBundleTest.dir/DependInfo.cmake --color= -[ 57%] Built target graphmoltestPicklerGlobalSetting +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/CMakeFiles/hanoiTest.dir/DependInfo.cmake --color= +[ 55%] Built target graphmoltestChirality make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/depend +[ 56%] Built target testUFFForceField make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Depictor /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/DependInfo.cmake --color= +make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/ForceField/UFF/CMakeFiles/testUFFForceField.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build.make Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/resMolSupplierTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build.make Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build make -f Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build.make Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build -[ 58%] Built target testUFFForceField -make -f Code/GraphMol/CMakeFiles/hanoiTest.dir/build.make Code/GraphMol/CMakeFiles/hanoiTest.dir/build -make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/depend -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/CMakeFiles/molBundleTest.dir/build.make Code/GraphMol/CMakeFiles/molBundleTest.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/hanoiTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 60%] Built target resMolSupplierTest -[ 60%] Built target graphmoltestPickler +make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/molBundleTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build.make Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build -make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake --color= -[ 61%] Built target graphmolMolOpsTest -[ 61%] Built target hanoiTest +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmolMolOpsTest.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/CMakeFiles/graphmoltestPickler.dir/build'. +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 57%] Built target resMolSupplierTest +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 59%] Built target graphmoltestPickler +[ 59%] Built target hanoiTest +[ 59%] Built target graphmolMolOpsTest +[ 60%] Built target molBundleTest +make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/depend +make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/depend make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/depend make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/depend -[ 62%] Built target molBundleTest make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTest1.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build -[ 62%] Built target smiTest1 +[ 60%] Built target testDepictor make -f Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Depictor/CMakeFiles/testDepictor.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 60%] Built target smiTestCatch +[ 60%] Built target smiTest1 +make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build +make -f Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/smiTestCatch.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/SmilesParse/CMakeFiles/cxsmilesTest.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build make -f Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build +make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/FileParsers/CMakeFiles/testSequence.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMolWriter.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build -[ 62%] Built target testDepictor -make -f Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build -make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/DependInfo.cmake --color= +make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testSequence.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMolSupplier.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/fileParsersTest1.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build -[ 63%] Built target testMolWriter -make -f Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/depend -[ 64%] Built target smiTestCatch -[ 64%] Built target testSequence +make -f Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build +make -f Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build +[ 61%] Built target cxsmilesTest make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/depend -[ 65%] Built target cxsmilesTest +[ 62%] Built target testSequence make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/depend -make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/depend -[ 66%] Built target fileParsersTest1 -[ 66%] Built target testMolSupplier -make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/depend -make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 63%] Built target testMolWriter +[ 64%] Built target fileParsersTest1 +make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/depend +make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/depend +[ 64%] Built target testMolSupplier +make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/DependInfo.cmake --color= cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Substruct /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testExtendedStereoParsing.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMultithreadedMolSupplier.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 65%] Built target testExtendedStereoParsing +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build -[ 67%] Built target testExtendedStereoParsing +make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/depend +[ 65%] Built target testMultithreadedMolSupplier make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Substruct /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/DependInfo.cmake --color= -[ 67%] Built target testMultithreadedMolSupplier make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/depend +[ 66%] Built target testGeneralFileReader +make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build -make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testGeneralFileReader.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/DependInfo.cmake --color= +make -f Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build make -f Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build.make Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build +[ 66%] Built target testTplParser +make -f Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testTplParser.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 66%] Built target testMol2ToMol +make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testMol2ToMol.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/testPropertyLists.dir/build'. @@ -18667,419 +18671,409 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/testSubstructMatch.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FileParsers/CMakeFiles/fileParsersCatchTest.dir/build'. +[ 66%] Built target fileParsersCatchTest make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Substruct/CMakeFiles/substructTestCatch.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FilterCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 67%] Built target testMol2ToMol -make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/depend -[ 68%] Built target testPropertyLists -make -f Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/depend -[ 69%] Built target testGeneralFileReader -make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/depend -[ 69%] Built target fileParsersCatchTest -[ 69%] Built target testTplParser +make -f Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/DependInfo.cmake --color= -[ 69%] Built target testSubstructMatch -[ 69%] Built target substructTestCatch +make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/depend +[ 67%] Built target testPropertyLists make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/depend +[ 67%] Built target testSubstructMatch make -f Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/depend +[ 67%] Built target substructTestCatch +[ 67%] Built target testChemTransforms make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FragCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/DependInfo.cmake --color= -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FilterCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FragCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/DependInfo.cmake --color= -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build.make Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/testChemTransforms.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build.make Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build +[ 67%] Built target chemTransformsTestCatch +make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemTransforms/CMakeFiles/chemTransformsTestCatch.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/FilterCatalog/CMakeFiles/filterCatalogTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build'. +make -f Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/FragCatalog/CMakeFiles/testFragCatalog.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FragCatalog/Wrap/CMakeFiles/rdfragcatalog.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 69%] Built target testChemTransforms make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build -make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/depend -[ 69%] Built target chemTransformsTestCatch -make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/depend -[ 69%] Built target testMHFPFingerprint -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/DependInfo.cmake --color= +make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build +make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build +[ 67%] Built target filterCatalogTest make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build -[ 69%] Built target rdfragcatalog -make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/depend -[ 69%] Built target filterCatalogTest -make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/depend -[ 70%] Built target testFingerprintGenerators -make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/DependInfo.cmake --color= -[ 70%] Built target testFragCatalog -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/DependInfo.cmake --color= -make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/UFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/DependInfo.cmake --color= +[ 69%] Built target Descriptors make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testMHFPFingerprint.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/depend +[ 69%] Built target testFragCatalog make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/depend make -f Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build +[ 69%] Built target rdfragcatalog make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/fpTestCatch.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build -[ 70%] Built target fpTestCatch -make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/depend -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testFingerprintGenerators.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 70%] Built target testMMFFForceFieldHelpersMultiThread -make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/depend -[ 70%] Built target testFingerprints -make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/depend -[ 71%] Built target testMMFFForceFieldHelpers -[ 71%] Built target testUFFForceFieldHelpers -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]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ShapeHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/DependInfo.cmake --color= +[ 69%] Built target testMHFPFingerprint +make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/depend +make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/testMolTransforms.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/Descriptors.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build -[ 73%] Built target Descriptors -make -f Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FMCS /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Fingerprints/CMakeFiles/testFingerprints.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolCatalog/CMakeFiles/testMolCatalog.dir/build'. +[ 69%] Built target fpTestCatch make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build -[ 73%] Built target testDistGeomHelpers +make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/testFeatures.dir/build make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/depend -[ 74%] Built target testMolCatalog -[ 74%] Built target testFeatures +[ 70%] Built target testFingerprintGenerators 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]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 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for 'Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build -[ 74%] Built target testCrystalForceField +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build.make Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build +make -f Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build.make Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build +[ 71%] Built target testMolCatalog make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/depend -[ 74%] Built target rdDistGeom -make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolInterchange /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 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'Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FMCS/CMakeFiles/FMCS.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolHash/CMakeFiles/MolHash.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MMPA/CMakeFiles/MMPA.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build.make Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Trajectory/CMakeFiles/trajectoryTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ShapeHelpers/CMakeFiles/testShapeHelpers.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 74%] Built target MMPA -[ 75%] Built target MolHash -make -f Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/depend -[ 76%] Built target FMCS +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build -make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend -make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend -[ 76%] Built target testShapeHelpers -make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend +[ 72%] Built target testMolTransforms +make -f Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build.make Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build +make -f Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/depend +[ 72%] Built target testShapeHelpers +[ 73%] Built target MolHash +make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/depend +make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Abbreviations /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/DependInfo.cmake --color= +make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/depend +[ 74%] Built target trajectoryTest +[ 74%] Built target substructLibraryTest +make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/ForceField/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake --color= +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake --color= -[ 77%] Built target trajectoryTest -make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/depend +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DistGeom /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/CMakeFiles/testDistGeom.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/DependInfo.cmake --color= -[ 78%] Built target molInterchangeTest1 -make -f Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/depend +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/DistGeom/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/DependInfo.cmake --color= +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/DistGeom/CMakeFiles/testDistGeom.dir/build.make Code/DistGeom/CMakeFiles/testDistGeom.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/SubstructLibrary/CMakeFiles/substructLibraryTest.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolInterchange/CMakeFiles/molInterchangeTest1.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build.make Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build -[ 78%] Built target substructLibraryTest -make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/DependInfo.cmake --color= +make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build'. +make[4]: Nothing to be done for 'Code/DistGeom/CMakeFiles/testDistGeom.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 75%] Built target molInterchangeTest1 +make -f Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/depend make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build +make -f Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build.make Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/Abbreviations/CMakeFiles/testAbbreviations.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build -[ 80%] Built target rdmolfiles +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 76%] Built target testDistGeom +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdmolfiles.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build +make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/DependInfo.cmake --color= +[ 78%] Built target rdmolfiles make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/depend +[ 78%] Built target testAbbreviations +[ 78%] Built target testAUTOCORR3D +[ 78%] Built target DistGeomHelpers +make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend +make -f Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build -[ 80%] Built target testAbbreviations make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR3D.dir/build'. +make[4]: Nothing to be done for 'Code/DistGeom/Wrap/CMakeFiles/DistGeom.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/ChemReactions/CMakeFiles/ChemReactions.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/DependInfo.cmake --color= +make -f Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build +[ 79%] Built target DistGeom +make -f Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/depend make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 80%] Built target testCoulombMat -make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/depend -make -f Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testMORSE.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testGETAWAY.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build +[ 82%] Built target ChemReactions +make -f Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/DependInfo.cmake --color= +make -f Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build +make -f Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testDescriptors.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 80%] Built target testGETAWAY -make -f Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/DependInfo.cmake --color= -[ 80%] Built target testAUTOCORR3D -make -f Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/depend -[ 80%] Built target testMORSE -make -f Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/depend -[ 83%] Built target ChemReactions +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testEEM.dir/build +[ 82%] Built target testMORSE +[ 82%] Built target testGETAWAY make -f Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/depend -[ 83%] Built target testMMFFForceField -[ 83%] Built target testDescriptors make -f Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors 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Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/DependInfo.cmake --color= +[ 82%] Built target testDescriptors +make -f Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/depend make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testPBF.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build +[ 82%] Built target testATF +[ 82%] Built target testEEM +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 83%] Built target testAUTOCORR2D +make -f Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build +make -f Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/depend +make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/depend +make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/depend +[ 83%] Built target test3D +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/DependInfo.cmake --color= +make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build +[ 83%] Built target testPBF +make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/depend +[ 83%] Built target testRDFcustom +make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testAUTOCORR2D.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 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Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testATF.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/testPBF.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testRDFcustom.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpersMultiThread.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/test3D.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/MMFF/CMakeFiles/testMMFFForceFieldHelpers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testRDF.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build.make Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build +[ 84%] Built target testRDF +make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testBCUT.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/DistGeomHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/DependInfo.cmake --color= +[ 84%] Built target testWHIM +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/ForceFieldHelpers/UFF/CMakeFiles/testUFFForceFieldHelpers.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 84%] Built target testAUTOCORR2D -make -f Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/depend -[ 84%] Built target testPBF -make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/depend -[ 84%] Built target testATF -[ 84%] Built target testEEM -[ 84%] Built target testRDFcustom make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/depend +[ 85%] Built target testMMFFForceFieldHelpers +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build.make Code/GraphMol/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build +make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/depend +[ 85%] Built target testMMFFForceFieldHelpersMultiThread make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/DependInfo.cmake --color= -[ 84%] Built target test3D -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/DependInfo.cmake --color= -make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend -[ 84%] Built target testRDF -make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend -[ 85%] Built target testBCUT -make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/DependInfo.cmake --color= +[ 85%] Built target rdMolDescriptors +[ 85%] Built target testUFFForceFieldHelpers make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/DependInfo.cmake --color= +make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/depend +make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolAlign/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' @@ -19087,64 +19081,87 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FMCS/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build +make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/CMakeFiles/testDistGeomHelpers.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build.make Code/GraphMol/Descriptors/Wrap/CMakeFiles/rdMolDescriptors.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build +make -f Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build.make Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build.make Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Descriptors/CMakeFiles/testWHIM.dir/build'. +[ 85%] Built target testDistGeomHelpers +make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/depend make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/ForceFieldHelpers/CrystalFF/CMakeFiles/testCrystalForceField.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 85%] Built target testWHIM -[ 85%] Built target rdMolDescriptors -make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend -make -f Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build.make Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FMCS/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/FMCS/CMakeFiles/testFMCS.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build +[ 85%] Built target testCrystalForceField +make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/FMCS/Test /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolHash /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/DistGeomHelpers/Wrap/CMakeFiles/rdDistGeom.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build.make Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build -[ 85%] Built target rdFMCS -make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend +make -f Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build.make Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build [ 85%] Built target testFMCS -make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build +make -f Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build.make Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolHash/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolHash /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/DependInfo.cmake --color= make -f Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/FMCS/Wrap/CMakeFiles/rdFMCS.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 85%] Built target rdDistGeom +make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolHash/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/DependInfo.cmake --color= +[ 85%] Built target rdFMCS +make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MMPA /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/DependInfo.cmake --color= +[ 85%] Built target testMolAlign +[ 85%] Built target rdMolAlign +make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend +make -f Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/depend +[ 85%] Built target testO3AAlign +make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MMPA/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Deprotect /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/RGroupDecomposition /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build.make Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build.make Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build.make Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/FMCS/Test/CMakeFiles/FMCStest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build.make Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/Wrap/CMakeFiles/rdMolAlign.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolHash/CMakeFiles/molHashCatchTest.dir/build'. @@ -19152,350 +19169,348 @@ make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolHash/Wrap/CMakeFiles/rdMolHash.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build +make -f Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/testMolAlign.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolAlign/CMakeFiles/testO3AAlign.dir/build'. +[ 85%] Built target molHashCatchTest +make -f Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/depend make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 85%] Built target FMCStest -make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/depend +make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/MolDraw2D.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MMPA/CMakeFiles/testMMPA.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 85%] Built target FMCStest +make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MMPA/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/DependInfo.cmake --color= -[ 85%] Built target testO3AAlign -[ 85%] Built target testMolAlign -make -f Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/depend -make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/depend -[ 85%] Built target rdMolAlign -make -f Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/depend -[ 85%] Built target molHashCatchTest -[ 87%] Built target MolDraw2D +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolEnumerator /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/DependInfo.cmake --color= +[ 85%] Built target rdMolHash make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/depend -[ 87%] Built target rdMolHash -make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend -make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Deprotect /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/DependInfo.cmake --color= -[ 87%] Built target testMMPA -make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/RGroupDecomposition /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition 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/build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/MMFF /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/DependInfo.cmake --color= +[ 87%] Built target MolDraw2D +make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/depend +[ 87%] Built target testMMPA +make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/DependInfo.cmake --color= +[ 88%] Built target rdMMPA make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/DependInfo.cmake --color= +[ 89%] Built target Deprotect +make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/depend +make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build.make Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build +make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MMPA/Wrap/CMakeFiles/rdMMPA.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build make -f Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 88%] Built target rdMMPA -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 Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ChemReactions/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Deprotect/CMakeFiles/Deprotect.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 90%] Built target RGroupDecomposition +make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolEnumerator/CMakeFiles/MolEnumerator.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/CMakeFiles/RGroupDecomposition.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testReaction.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build'. +make -f Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testReactionFingerprints.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 89%] Built target Deprotect -[ 90%] Built target RGroupDecomposition -make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/depend +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build.make Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build +[ 90%] Built target MolEnumerator +make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/depend +[ 90%] Built target testReaction make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/DependInfo.cmake --color= -[ 90%] Built target testReaction +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake --color= +[ 90%] Built target testReactionFingerprints make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/depend +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/rxnTestCatch.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/CMakeFiles/testEnumeration.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 90%] Built target rxnTestCatch +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build [ 90%] Built target testEnumeration -[ 90%] Built target testReactionFingerprints +make -f Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/testCoulombMat.dir/build 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]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/ForceField/MMFF/CMakeFiles/testMMFFForceField.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolDraw2D/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DRxnTest1.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build -[ 93%] Built target MolStandardize +[ 91%] Built target rdChemReactions make -f Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/depend +[ 91%] Built target testMMFFForceField +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build +make -f Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build.make Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/Descriptors/CMakeFiles/testCoulombMat.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Deprotect /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/DependInfo.cmake --color= -[ 93%] Built target moldraw2DRxnTest1 make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build.make Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/depend -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 93%] Built target moldraw2DTestCatch +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DependInfo.cmake --color= +[ 91%] Built target moldraw2DRxnTest1 make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/depend +[ 91%] Built target testCoulombMat +make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/RGroupDecomposition /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Deprotect/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/DependInfo.cmake --color= -[ 94%] Built target moldraw2DTest1 -make -f Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build.make Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/depend +make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTestCatch.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/MolStandardize.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build.make Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/RGroupDecomposition/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build.make Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build.make Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 94%] Built target testRGroupDecomp +[ 94%] Built target MolStandardize +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/Deprotect/CMakeFiles/deprotectTest.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build.make Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build +make -f Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build.make Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/depend +[ 94%] Built target moldraw2DTestCatch +make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/CMakeFiles/testRGroupDecomp.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 94%] Built target rdmolops -make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/depend -[ 94%] Built target rxnTestCatch -[ 94%] Built target MolEnumerator +[ 94%] Built target rdDeprotect make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/DependInfo.cmake --color= [ 94%] Built target deprotectTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/depend -make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/depend -[ 94%] Built target rdRGroupDecomposition -make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build.make Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 94%] Built target testRGroupDecomp +make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/depend make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build.make Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.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/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.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/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/Deprotect/Wrap/CMakeFiles/rdDeprotect.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ChemReactions/Wrap/CMakeFiles/rdChemReactions.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/CMakeFiles/moldraw2DTest1.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build +[ 95%] Built target rdMolDraw2D make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/RGroupDecomposition/Wrap/CMakeFiles/rdRGroupDecomposition.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build.make Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolDraw2D/Wrap/CMakeFiles/rdMolDraw2D.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 94%] Built target rdDeprotect -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build'. +make -f Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build +make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/depend make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build +[ 96%] Built target moldraw2DTest1 make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/depend -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/DependInfo.cmake --color= -[ 94%] Built target molValidateTest +[ 96%] Built target rdRGroupDecomposition make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molNormalizeTest.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/DependInfo.cmake --color= -[ 95%] Built target rdChemReactions +[ 97%] Built target molStandardizeTest make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/depend -[ 96%] Built target rdMolDraw2D -[ 96%] Built target molNormalizeTest +[ 97%] Built target molNormalizeTest +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molValidateTest.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/depend -make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/depend -[ 96%] Built target molFragmentTest -make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend -[ 96%] Built target molChargeTest -make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/DependInfo.cmake --color= -[ 97%] Built target molStandardizeTest -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolEnumerator /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolStandardize/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/DependInfo.cmake --color= -make -f Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molChargeTest.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build +make -f Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molFragmentTest.dir/build +[ 97%] Built target molValidateTest +make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/depend +[ 97%] Built target molChargeTest make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/Wrap/CMakeFiles/rdmolops.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolEnumerator/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/DependInfo.cmake --color= +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molTautomerTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-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/molFragmentTest.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build +make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/depend +[ 97%] Built target rdmolops +make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/depend +[ 97%] Built target molTautomerTest +make -f Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/depend +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolEnumerator /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/MolEnumerator/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeCatchTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +[ 97%] Built target molFragmentTest make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build'. +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build +[ 97%] Built target molStandardizeCatchTest +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build.make Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/ScaffoldNetwork/CMakeFiles/ScaffoldNetwork.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -[ 97%] Built target molStandardizeCatchTest -make -f Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build.make Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build -[ 97%] Built target molTautomerTest -[ 97%] Built target testMolEnumerator -[ 98%] 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 -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake --color= -cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/DependInfo.cmake --color= +[ 97%] Built target molStandardizeSmallTest +make -f Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build.make Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make -f Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build +[ 98%] Built target rdMolStandardize make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/MolEnumerator/Wrap/CMakeFiles/rdMolEnumerator.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/CMakeFiles/molStandardizeSmallTest.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/MolStandardize/Wrap/CMakeFiles/rdMolStandardize.dir/build'. +make[4]: Nothing to be done for 'Code/GraphMol/MolEnumerator/CMakeFiles/testMolEnumerator.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/TautomerQuery/CMakeFiles/TautomerQuery.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make -f Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build -[ 98%] Built target rdMolEnumerator -[ 98%] Built target TautomerQuery +[ 99%] 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 +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/DependInfo.cmake --color= +[ 99%] Built target rdMolEnumerator +[ 99%] Built target TautomerQuery +[ 99%] Built target testMolEnumerator make -f Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/depend -[ 99%] Built target rdMolStandardize make -f Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/depend make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/ScaffoldNetwork/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/TautomerQuery /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/DependInfo.cmake --color= -[ 99%] Built target molStandardizeSmallTest make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' cd /build/rdkit-202009.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/rdkit-202009.4 /build/rdkit-202009.4/Code/GraphMol/TautomerQuery/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap /build/rdkit-202009.4/obj-aarch64-linux-gnu/Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build.make Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build make -f Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build -[ 99%] Built target rdScaffoldNetwork +make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/TautomerQuery/Wrap/CMakeFiles/rdTautomerQuery.dir/build'. +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'Code/GraphMol/ScaffoldNetwork/CMakeFiles/testScaffoldNetwork.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make -f Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build.make Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build make -f Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build.make Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build make[4]: Entering directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' -make[4]: Nothing to be done for 'Code/GraphMol/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build'. -make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' +make[4]: Nothing to be done for 'Code/GraphMol/ScaffoldNetwork/Wrap/CMakeFiles/rdScaffoldNetwork.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-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/rdkit-202009.4/obj-aarch64-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/TautomerQuery/CMakeFiles/tautomerQueryTestCatch.dir/build'. make[4]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' [ 99%] Built target testScaffoldNetwork +[ 99%] Built target rdTautomerQuery +[ 99%] Built target rdScaffoldNetwork [100%] Built target tautomerQueryTestCatch -[100%] Built target rdTautomerQuery make[3]: Leaving directory '/build/rdkit-202009.4/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/rdkit-202009.4/obj-aarch64-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall @@ -22008,16 +22023,16 @@ I: dh_python3 fs:343: renaming rdqueries.so to rdqueries.cpython-39-aarch64-linux-gnu.so I: dh_python3 fs:343: renaming rdtrajectory.so to rdtrajectory.cpython-39-aarch64-linux-gnu.so I: dh_python3 fs:343: renaming rdMolDraw2D.so to rdMolDraw2D.cpython-39-aarch64-linux-gnu.so -I: dh_python3 fs:343: renaming rdMolStandardize.so to rdMolStandardize.cpython-39-aarch64-linux-gnu.so I: dh_python3 fs:343: renaming rdScaffoldNetwork.so to rdScaffoldNetwork.cpython-39-aarch64-linux-gnu.so +I: dh_python3 fs:343: renaming rdMolStandardize.so to rdMolStandardize.cpython-39-aarch64-linux-gnu.so I: dh_python3 fs:343: renaming rdMetricMatrixCalc.so to rdMetricMatrixCalc.cpython-39-aarch64-linux-gnu.so I: dh_python3 fs:343: renaming cDataStructs.so to cDataStructs.cpython-39-aarch64-linux-gnu.so I: dh_python3 fs:343: renaming DistGeom.so to DistGeom.cpython-39-aarch64-linux-gnu.so I: dh_python3 fs:343: renaming rdForceField.so to rdForceField.cpython-39-aarch64-linux-gnu.so I: dh_python3 fs:343: renaming rdGeometry.so to rdGeometry.cpython-39-aarch64-linux-gnu.so I: dh_python3 fs:343: renaming Clustering.so to Clustering.cpython-39-aarch64-linux-gnu.so -I: dh_python3 fs:343: renaming cQuantize.so to cQuantize.cpython-39-aarch64-linux-gnu.so I: dh_python3 fs:343: renaming rdInfoTheory.so to rdInfoTheory.cpython-39-aarch64-linux-gnu.so +I: dh_python3 fs:343: renaming cQuantize.so to cQuantize.cpython-39-aarch64-linux-gnu.so I: dh_python3 fs:343: renaming rdAlignment.so to rdAlignment.cpython-39-aarch64-linux-gnu.so I: dh_python3 fs:343: renaming rdSimDivPickers.so to rdSimDivPickers.cpython-39-aarch64-linux-gnu.so dh_numpy3 -ppython3-rdkit @@ -22058,9 +22073,9 @@ 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 librdkit-dev: 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: 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: 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 @@ -22070,11 +22085,11 @@ 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 'librdkit1' in '../librdkit1_202009.4-1_arm64.deb'. -dpkg-deb: building package 'python3-rdkit' in '../python3-rdkit_202009.4-1_arm64.deb'. -dpkg-deb: building package 'librdkit-dev' in '../librdkit-dev_202009.4-1_arm64.deb'. dpkg-deb: building package 'rdkit-doc' in '../rdkit-doc_202009.4-1_all.deb'. +dpkg-deb: building package 'librdkit-dev' in '../librdkit-dev_202009.4-1_arm64.deb'. dpkg-deb: building package 'postgresql-13-rdkit-dbgsym' in '../postgresql-13-rdkit-dbgsym_202009.4-1_arm64.deb'. +dpkg-deb: building package 'librdkit1' in '../librdkit1_202009.4-1_arm64.deb'. +dpkg-deb: building package 'python3-rdkit' in '../python3-rdkit_202009.4-1_arm64.deb'. dpkg-deb: building package 'postgresql-13-rdkit' in '../postgresql-13-rdkit_202009.4-1_arm64.deb'. dpkg-deb: building package 'librdkit1-dbgsym' in '../librdkit1-dbgsym_202009.4-1_arm64.deb'. dpkg-deb: building package 'rdkit-data' in '../rdkit-data_202009.4-1_all.deb'. @@ -22086,12 +22101,14 @@ 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/16409/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/16409/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/15165 and its subdirectories -I: Current time: Tue Aug 30 16:31:20 -12 2022 -I: pbuilder-time-stamp: 1661920280 +I: removing directory /srv/workspace/pbuilder/16409 and its subdirectories +I: Current time: Thu Jul 29 15:32:34 +14 2021 +I: pbuilder-time-stamp: 1627522354